Annotations: 7NFC

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
N [auth R]	SCOP2B Superfamily	XRCC4 N-terminal domain-like	8051827	3001319	SCOP2B (2022-06-29)
N [auth R]	SCOP2B Superfamily	XRCC4 C-terminal oligomerization domain-like	8051828	3001502	SCOP2B (2022-06-29)
M [auth Q]	SCOP2B Superfamily	XRCC4 N-terminal domain-like	8051827	3001319	SCOP2B (2022-06-29)
M [auth Q]	SCOP2B Superfamily	XRCC4 C-terminal oligomerization domain-like	8051828	3001502	SCOP2B (2022-06-29)
L [auth P]	SCOP2B Superfamily	DNA ligase IV Xrcc4-binding domain-like	8095958	3002713	SCOP2B (2022-06-29)
I [auth M]	SCOP2B Superfamily	DNA ligase IV Xrcc4-binding domain-like	8095958	3002713	SCOP2B (2022-06-29)
K [auth O]	SCOP2B Superfamily	XRCC4 N-terminal domain-like	8036633	3001319	SCOP2B (2022-06-29)
K [auth O]	SCOP2B Superfamily	XRCC4 C-terminal oligomerization domain-like	8036636	3001502	SCOP2B (2022-06-29)
J [auth N]	SCOP2B Superfamily	XRCC4 N-terminal domain-like	8036633	3001319	SCOP2B (2022-06-29)
J [auth N]	SCOP2B Superfamily	XRCC4 C-terminal oligomerization domain-like	8036636	3001502	SCOP2B (2022-06-29)
H [auth L]	SCOP2B Superfamily	XRCC4 N-terminal domain-like	8036633	3001319	SCOP2B (2022-06-29)
H [auth L]	SCOP2B Superfamily	XRCC4 C-terminal oligomerization domain-like	8036636	3001502	SCOP2B (2022-06-29)
G [auth K]	SCOP2B Superfamily	XRCC4 C-terminal oligomerization domain-like	8036636	3001502	SCOP2B (2022-06-29)
G [auth K]	SCOP2B Superfamily	XRCC4 N-terminal domain-like	8036633	3001319	SCOP2B (2022-06-29)
F [auth H]	SCOP2B Superfamily	C-terminal domain of Ku80	8041016	3001210	SCOP2B (2022-06-29)
F [auth H]	SCOP2B Superfamily	SPOC domain-like	8035577	3000675	SCOP2B (2022-06-29)
F [auth H]	SCOP2B Superfamily	vWA-like	8035579	3000832	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	SPOC domain-like	8035577	3000675	SCOP2B (2022-06-29)
E [auth G]	SCOP2B Superfamily	SPOC domain-like	8035571	3000675	SCOP2B (2022-06-29)
E [auth G]	SCOP2B Superfamily	vWA-like	8035574	3000832	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	vWA-like	8035574	3000832	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	SPOC domain-like	8035571	3000675	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
N [auth R]	XLF_N	e7nfcR2	A: beta barrels	X: XRCC4, N-terminal domain-like	H: XRCC4, N-terminal domain (From Topology)	T: XRCC4, N-terminal domain	F: XLF_N	ECOD (1.6)
N [auth R]	XLF_like	e7nfcR3	A: alpha arrays	X: HTH	H: HTH	T: HTH motif inserted in other structures	F: XLF_like	ECOD (1.6)
N [auth R]	XLF_C	e7nfcR1	A: alpha duplicates or obligate multimers	X: XRCC4 C-terminal oligomerization domain (From Topology)	H: XRCC4 C-terminal oligomerization domain (From Topology)	T: XRCC4 C-terminal oligomerization domain	F: XLF_C	ECOD (1.6)
M [auth Q]	XLF_N	e7nfcQ2	A: beta barrels	X: XRCC4, N-terminal domain-like	H: XRCC4, N-terminal domain (From Topology)	T: XRCC4, N-terminal domain	F: XLF_N	ECOD (1.6)
M [auth Q]	XLF_like	e7nfcQ3	A: alpha arrays	X: HTH	H: HTH	T: HTH motif inserted in other structures	F: XLF_like	ECOD (1.6)
M [auth Q]	XLF_C	e7nfcQ1	A: alpha duplicates or obligate multimers	X: XRCC4 C-terminal oligomerization domain (From Topology)	H: XRCC4 C-terminal oligomerization domain (From Topology)	T: XRCC4 C-terminal oligomerization domain	F: XLF_C	ECOD (1.6)
L [auth P]	PTCB-BRCT	e7nfcP2	A: a/b three-layered sandwiches	X: BRCT domain (From Topology)	H: BRCT domain (From Topology)	T: BRCT domain	F: PTCB-BRCT	ECOD (1.6)
L [auth P]	BRCT_2_1	e7nfcP1	A: a/b three-layered sandwiches	X: BRCT domain (From Topology)	H: BRCT domain (From Topology)	T: BRCT domain	F: BRCT_2_1	ECOD (1.6)
I [auth M]	PTCB-BRCT	e7nfcM2	A: a/b three-layered sandwiches	X: BRCT domain (From Topology)	H: BRCT domain (From Topology)	T: BRCT domain	F: PTCB-BRCT	ECOD (1.6)
I [auth M]	BRCT_2_1	e7nfcM1	A: a/b three-layered sandwiches	X: BRCT domain (From Topology)	H: BRCT domain (From Topology)	T: BRCT domain	F: BRCT_2_1	ECOD (1.6)
K [auth O]	XRCC4_1st	e7nfcO2	A: beta barrels	X: XRCC4, N-terminal domain-like	H: XRCC4, N-terminal domain (From Topology)	T: XRCC4, N-terminal domain	F: XRCC4_1st	ECOD (1.6)
K [auth O]	XRCC4_2nd	e7nfcO3	A: alpha arrays	X: HTH	H: HTH	T: HTH motif inserted in other structures	F: XRCC4_2nd	ECOD (1.6)
K [auth O]	XRCC4_3rd	e7nfcO1	A: alpha duplicates or obligate multimers	X: XRCC4 C-terminal oligomerization domain (From Topology)	H: XRCC4 C-terminal oligomerization domain (From Topology)	T: XRCC4 C-terminal oligomerization domain	F: XRCC4_3rd	ECOD (1.6)
J [auth N]	XRCC4_1st	e7nfcN2	A: beta barrels	X: XRCC4, N-terminal domain-like	H: XRCC4, N-terminal domain (From Topology)	T: XRCC4, N-terminal domain	F: XRCC4_1st	ECOD (1.6)
J [auth N]	XRCC4_2nd	e7nfcN3	A: alpha arrays	X: HTH	H: HTH	T: HTH motif inserted in other structures	F: XRCC4_2nd	ECOD (1.6)
J [auth N]	XRCC4_3rd	e7nfcN1	A: alpha duplicates or obligate multimers	X: XRCC4 C-terminal oligomerization domain (From Topology)	H: XRCC4 C-terminal oligomerization domain (From Topology)	T: XRCC4 C-terminal oligomerization domain	F: XRCC4_3rd	ECOD (1.6)
H [auth L]	XRCC4_1st	e7nfcL2	A: beta barrels	X: XRCC4, N-terminal domain-like	H: XRCC4, N-terminal domain (From Topology)	T: XRCC4, N-terminal domain	F: XRCC4_1st	ECOD (1.6)
H [auth L]	XRCC4_2nd	e7nfcL3	A: alpha arrays	X: HTH	H: HTH	T: HTH motif inserted in other structures	F: XRCC4_2nd	ECOD (1.6)
H [auth L]	XRCC4_3rd	e7nfcL1	A: alpha duplicates or obligate multimers	X: XRCC4 C-terminal oligomerization domain (From Topology)	H: XRCC4 C-terminal oligomerization domain (From Topology)	T: XRCC4 C-terminal oligomerization domain	F: XRCC4_3rd	ECOD (1.6)
G [auth K]	XRCC4_1st	e7nfcK2	A: beta barrels	X: XRCC4, N-terminal domain-like	H: XRCC4, N-terminal domain (From Topology)	T: XRCC4, N-terminal domain	F: XRCC4_1st	ECOD (1.6)
G [auth K]	XRCC4_2nd	e7nfcK3	A: alpha arrays	X: HTH	H: HTH	T: HTH motif inserted in other structures	F: XRCC4_2nd	ECOD (1.6)
G [auth K]	XRCC4_3rd	e7nfcK1	A: alpha duplicates or obligate multimers	X: XRCC4 C-terminal oligomerization domain (From Topology)	H: XRCC4 C-terminal oligomerization domain (From Topology)	T: XRCC4 C-terminal oligomerization domain	F: XRCC4_3rd	ECOD (1.6)
F [auth H]	Ku	e7nfcH1	A: beta barrels	X: SPOC domain-like	H: SPOC domain-related	T: Ku70/80 subunit middle domain	F: Ku	ECOD (1.6)
F [auth H]	Ku_PK_bind	e7nfcH2	A: alpha superhelices	X: Repetitive alpha hairpins	H: C-terminal domain of Ku80 (From Topology)	T: C-terminal domain of Ku80	F: Ku_PK_bind	ECOD (1.6)
F [auth H]	Ku_N	e7nfcH3	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: vWA-like	F: Ku_N	ECOD (1.6)
C	Ku	e7nfcC1	A: beta barrels	X: SPOC domain-like	H: SPOC domain-related	T: Ku70/80 subunit middle domain	F: Ku	ECOD (1.6)
C	Ku_N	e7nfcC2	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: vWA-like	F: Ku_N	ECOD (1.6)
E [auth G]	Ku	e7nfcG1	A: beta barrels	X: SPOC domain-like	H: SPOC domain-related	T: Ku70/80 subunit middle domain	F: Ku	ECOD (1.6)
E [auth G]	Ku_N	e7nfcG2	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: vWA-like	F: Ku_N	ECOD (1.6)
B	Ku	e7nfcB1	A: beta barrels	X: SPOC domain-like	H: SPOC domain-related	T: Ku70/80 subunit middle domain	F: Ku	ECOD (1.6)
B	Ku_N	e7nfcB2	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: vWA-like	F: Ku_N	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
M [auth Q], N [auth R]	PF09302	XLF N-terminal domain (XLF)	XLF N-terminal domain	XLF (also called Cernunnos) is Xrcc4-like-factor, and interacts with the XRCC4-DNA ligase IV complex to promote DNA non-homologous end-joining. It directly interacts with the XRCC4-Ligase IV complex and siRNA-mediated down-regulation of XLF in human ...	XLF (also called Cernunnos) is Xrcc4-like-factor, and interacts with the XRCC4-DNA ligase IV complex to promote DNA non-homologous end-joining. It directly interacts with the XRCC4-Ligase IV complex and siRNA-mediated down-regulation of XLF in human cell lines leads to radio-sensitivity and impaired DNA non-homologous end-joining [1]. This family contains Nej1 (non-homologous end-joining factor) [2], and Lif1, ligase-interacting factor [3]. XLF forms one of the components of the NHEJ machinery for DNA non-homologous end-joining [4]. This entry represents the N-terminal beta sandwich domain of XLF.	Domain
M [auth Q], N [auth R]	PF21928	XLF protein coiled-coil region (XLF_CC)	XLF protein coiled-coil region	-	Coiled-coil
I [auth M], L [auth P]	PF11411	DNA ligase IV (DNA_ligase_IV)	DNA ligase IV	-	Family
I [auth M], L [auth P]	PF00533	BRCA1 C Terminus (BRCT) domain (BRCT)	BRCA1 C Terminus (BRCT) domain	The BRCT domain is found predominantly in proteins involved in cell cycle checkpoint functions responsive to DNA damage. The BRCT domain of XRCC1 forms a homodimer in the crystal structure. This suggests that pairs of BRCT domains associate as homo- ...	The BRCT domain is found predominantly in proteins involved in cell cycle checkpoint functions responsive to DNA damage. The BRCT domain of XRCC1 forms a homodimer in the crystal structure. This suggests that pairs of BRCT domains associate as homo- or heterodimers. BRCT domains are often found as tandem-repeat pairs [2]. Structures of the BRCA1 BRCT domains revealed a basis for a widely utilised head-to-tail BRCT-BRCT oligomerisation mode [3]. This conserved tandem BRCT architecture facilitates formation of the canonical BRCT phospho-peptide interaction cleft at a groove between the BRCT domains. Disease associated missense and nonsense mutations in the BRCA1 BRCT domains disrupt peptide binding by directly occluding this peptide binding groove, or by disrupting key conserved BRCT core folding determinants [5].	Domain
G [auth K], H [auth L], J [auth N], K [auth O]	PF06632	XRCC4 N-terminal domain (XRCC4)	XRCC4 N-terminal domain	This family consists of several eukaryotic DNA double-strand break repair and V(D)J recombination protein XRCC4 sequences. In the non-homologous end joining pathway of DNA double-strand break repair, the ligation step is catalysed by a complex of XRC ...	This family consists of several eukaryotic DNA double-strand break repair and V(D)J recombination protein XRCC4 sequences. In the non-homologous end joining pathway of DNA double-strand break repair, the ligation step is catalysed by a complex of XRCC4 and DNA ligase IV. It is thought that XRCC4 and ligase IV are essential for alignment-based gap filling, as well as for final ligation of the breaks [1]. This entry represents the N-terminal beta sandwich domain.	Domain
G [auth K], H [auth L], J [auth N], K [auth O]	PF21924	XRCC4 coiled-coil (XRCC4_CC)	XRCC4 coiled-coil	-	Coiled-coil
C, F [auth H]	PF02735	Ku70/Ku80 beta-barrel domain (Ku)	Ku70/Ku80 beta-barrel domain	The Ku heterodimer (composed of Ku70 Swiss:P12956 and Ku80 Swiss:P13010) contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by the non-homologous end-joining pathway. This is the central DNA-bi ...	The Ku heterodimer (composed of Ku70 Swiss:P12956 and Ku80 Swiss:P13010) contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by the non-homologous end-joining pathway. This is the central DNA-binding beta-barrel domain. This domain is found in both the Ku70 Swiss:P12956 and Ku80 Swiss:P13010 proteins that form a DNA binding heterodimer [1].	Domain
C, F [auth H]	PF08785	Ku C terminal domain like (Ku_PK_bind)	Ku C terminal domain like	The non-homologous end joining (NHEJ) pathway is one method by which double stranded breaks in chromosomal DNA are repaired. Ku is a component of a multi-protein complex that is involved in the NHEJ. Ku has affinity for DNA ends and recruits the DNA ...	The non-homologous end joining (NHEJ) pathway is one method by which double stranded breaks in chromosomal DNA are repaired. Ku is a component of a multi-protein complex that is involved in the NHEJ. Ku has affinity for DNA ends and recruits the DNA-dependent protein kinase catalytic subunit (DNA-PKcs). This domain is found at the C terminal of Ku which binds to DNA-PKcs [1].	Domain
C, F [auth H]	PF03730	Ku70/Ku80 C-terminal arm (Ku_C)	Ku70/Ku80 C-terminal arm	-	Family
C, F [auth H]	PF03731	Ku70/Ku80 N-terminal alpha/beta domain (Ku_N)	Ku70/Ku80 N-terminal alpha/beta domain	The Ku heterodimer (composed of Ku70 Swiss:P12956 and Ku80 Swiss:P13010) contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by the non-homologous end-joining pathway. This is the amino terminal ...	The Ku heterodimer (composed of Ku70 Swiss:P12956 and Ku80 Swiss:P13010) contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by the non-homologous end-joining pathway. This is the amino terminal alpha/beta domain. This domain only makes a small contribution to the dimer interface. The domain comprises a six stranded beta sheet of the Rossman fold [1].	Domain
B, E [auth G]	PF02735	Ku70/Ku80 beta-barrel domain (Ku)	Ku70/Ku80 beta-barrel domain	The Ku heterodimer (composed of Ku70 Swiss:P12956 and Ku80 Swiss:P13010) contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by the non-homologous end-joining pathway. This is the central DNA-bi ...	The Ku heterodimer (composed of Ku70 Swiss:P12956 and Ku80 Swiss:P13010) contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by the non-homologous end-joining pathway. This is the central DNA-binding beta-barrel domain. This domain is found in both the Ku70 Swiss:P12956 and Ku80 Swiss:P13010 proteins that form a DNA binding heterodimer [1].	Domain
B, E [auth G]	PF03730	Ku70/Ku80 C-terminal arm (Ku_C)	Ku70/Ku80 C-terminal arm	-	Family
B, E [auth G]	PF03731	Ku70/Ku80 N-terminal alpha/beta domain (Ku_N)	Ku70/Ku80 N-terminal alpha/beta domain	The Ku heterodimer (composed of Ku70 Swiss:P12956 and Ku80 Swiss:P13010) contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by the non-homologous end-joining pathway. This is the amino terminal ...	The Ku heterodimer (composed of Ku70 Swiss:P12956 and Ku80 Swiss:P13010) contributes to genomic integrity through its ability to bind DNA double-strand breaks and facilitate repair by the non-homologous end-joining pathway. This is the amino terminal alpha/beta domain. This domain only makes a small contribution to the dimer interface. The domain comprises a six stranded beta sheet of the Rossman fold [1].	Domain
A, D [auth F]	PF08163	DNA-dependent protein kinase catalytic subunit, CC3 (DNAPKcs_CC3)	DNA-dependent protein kinase catalytic subunit, CC3	-	Repeat
A, D [auth F]	PF02260	FATC domain (FATC)	FATC domain	-	Family
A, D [auth F]	PF00454	Phosphatidylinositol 3- and 4-kinase (PI3_PI4_kinase)	Phosphatidylinositol 3- and 4-kinase	-	Family
A, D [auth F]	PF20502	DNA-dependent protein kinase catalytic subunit, CC1/2 (DNAPKcs_CC1-2)	DNA-dependent protein kinase catalytic subunit, CC1/2	-	Repeat
A, D [auth F]	PF19704	DNA-PKcs, CC5 (DNAPKcs_CC5)	DNA-PKcs, CC5	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
R [auth J]	DNA (27-MER)	-	-	-
P [auth E], Q [auth I]	DNA (28-MER)	-	-	-
O [auth D]	DNA (27-MER)	-	-	-
M [auth Q], N [auth R]	Non-homologous end-joining factor 1	DNA binding binding DNA end binding nucleic acid binding protein binding DNA polymerase binding enzyme binding	response to ionizing radiation response to stimulus response to radiation response to abiotic stimulus developmental process multicellular organismal process cellular developmental process hemopoiesis B cell activation cell activation cell development mononuclear cell differentiation lymphocyte differentiation lymphocyte activation response to ionizing radiation response to stimulus response to radiation response to abiotic stimulus developmental process multicellular organismal process cellular developmental process hemopoiesis B cell activation cell activation cell development mononuclear cell differentiation lymphocyte differentiation lymphocyte activation leukocyte activation B cell differentiation cell differentiation immune system process anatomical structure development cellular process leukocyte differentiation multicellular organism development central nervous system development nervous system development system development positive regulation of molecular function regulation of molecular function regulation of catalytic activity biological regulation positive regulation of catalytic activity positive regulation of ligase activity immune system development immunoglobulin production somatic cell DNA recombination nucleobase-containing compound metabolic process somatic recombination of immunoglobulin gene segments V(D)J recombination somatic diversification of immune receptors production of molecular mediator of immune response DNA recombination primary metabolic process DNA metabolic process gene expression macromolecule biosynthetic process nucleic acid metabolic process somatic diversification of immunoglobulins immunoglobulin V(D)J recombination biosynthetic process somatic diversification of immune receptors via germline recombination within a single locus metabolic process macromolecule metabolic process T cell activation T cell differentiation cellular response to stimulus double-strand break repair double-strand break repair via nonhomologous end joining cellular response to stress DNA damage response response to stress DNA repair telomere organization chromosome organization telomere maintenance cellular component organization organelle organization cellular component organization or biogenesis	protein-containing complex nonhomologous end joining complex catalytic complex intracellular protein-containing complex DNA repair complex membrane-bounded organelle intracellular anatomical structure nucleus nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle DNA-dependent protein kinase-DNA ligase 4 complex protein-containing complex nonhomologous end joining complex catalytic complex intracellular protein-containing complex DNA repair complex membrane-bounded organelle intracellular anatomical structure nucleus nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle DNA-dependent protein kinase-DNA ligase 4 complex membrane-enclosed lumen intracellular membraneless organelle nucleolus intracellular organelle lumen organelle lumen fibrillar center membraneless organelle nuclear lumen DNA ligase IV complex site of double-strand break site of DNA damage chromosome nucleoplasm
I [auth M], L [auth P]	DNA ligase 4	ligase activity, forming phosphoric ester bonds DNA ligase (ATP) activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid catalytic activity DNA ligase activity ligase activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding ligase activity, forming phosphoric ester bonds DNA ligase (ATP) activity catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid catalytic activity DNA ligase activity ligase activity binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding DNA binding nucleic acid binding cation binding magnesium ion binding metal ion binding	cellular response to stimulus cellular response to metal ion cellular response to chemical stimulus response to lithium ion cellular response to lithium ion response to stimulus response to metal ion response to chemical cellular process developmental process multicellular organism development multicellular organismal process central nervous system development anatomical structure development cellular response to stimulus cellular response to metal ion cellular response to chemical stimulus response to lithium ion cellular response to lithium ion response to stimulus response to metal ion response to chemical cellular process developmental process multicellular organism development multicellular organismal process central nervous system development anatomical structure development nervous system development system development cell division response to X-ray response to ionizing radiation response to radiation response to abiotic stimulus cell population proliferation cellular response to ionizing radiation cellular response to radiation cellular response to abiotic stimulus cellular response to environmental stimulus embryo development ending in birth or egg hatching chordate embryonic development embryo development in utero embryonic development cellular developmental process hemopoiesis cell activation cell development mononuclear cell differentiation lymphocyte activation lymphocyte differentiation leukocyte activation T cell differentiation in thymus T cell activation immune system process cell differentiation T cell differentiation leukocyte differentiation primary metabolic process DNA metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process biosynthetic process metabolic process macromolecule metabolic process DNA biosynthetic process stem cell proliferation fibroblast proliferation base-excision repair cellular response to stress DNA damage response response to stress DNA repair somatic stem cell population maintenance maintenance of cell number stem cell population maintenance positive regulation of nervous system development regulation of cellular process regulation of developmental process positive regulation of biological process regulation of cell differentiation regulation of neurogenesis regulation of cell development regulation of nervous system development positive regulation of developmental process neurogenesis positive regulation of cell differentiation positive regulation of neurogenesis regulation of multicellular organismal process positive regulation of cellular process regulation of multicellular organismal development regulation of biological process biological regulation positive regulation of cell development positive regulation of multicellular organismal process immune system development adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains lymphocyte mediated immunity immunoglobulin production immunoglobulin production involved in immunoglobulin-mediated immune response somatic cell DNA recombination B cell activation involved in immune response cell activation involved in immune response somatic diversification of immunoglobulins involved in immune response somatic recombination of immunoglobulin gene segments leukocyte activation involved in immune response leukocyte mediated immunity somatic diversification of immune receptors lymphocyte activation involved in immune response somatic recombination of immunoglobulin genes involved in immune response production of molecular mediator of immune response immune response B cell activation DNA recombination gene expression immunoglobulin mediated immune response adaptive immune response immune effector process somatic diversification of immunoglobulins somatic diversification of immune receptors via germline recombination within a single locus B cell mediated immunity isotype switching V(D)J recombination T cell receptor V(D)J recombination somatic diversification of T cell receptor genes somatic recombination of T cell receptor gene segments pro-B cell differentiation lymphoid progenitor cell differentiation hematopoietic progenitor cell differentiation double-strand break repair via classical nonhomologous end joining double-strand break repair double-strand break repair via nonhomologous end joining cellular component organization organelle organization chromosome organization cellular component organization or biogenesis positive regulation of cell population proliferation regulation of fibroblast proliferation regulation of cell population proliferation positive regulation of fibroblast proliferation establishment of integrated proviral latency viral latency viral process establishment of viral latency neuron apoptotic process negative regulation of neuron apoptotic process negative regulation of programmed cell death regulation of apoptotic process negative regulation of biological process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of cellular process apoptotic process programmed cell death regulation of neuron apoptotic process single strand break repair DN2 thymocyte differentiation nucleotide-excision repair, DNA gap filling nucleotide-excision repair response to gamma radiation immunoglobulin V(D)J recombination positive regulation of organelle organization regulation of cellular component organization positive regulation of cellular component organization regulation of chromosome organization regulation of organelle organization positive regulation of chromosome organization	membrane-bounded organelle protein-containing complex nonhomologous end joining complex intracellular anatomical structure catalytic complex nucleus nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle intracellular protein-containing complex DNA ligase IV complex DNA repair complex membrane-bounded organelle protein-containing complex nonhomologous end joining complex intracellular anatomical structure catalytic complex nucleus nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle intracellular protein-containing complex DNA ligase IV complex DNA repair complex membraneless organelle intracellular membraneless organelle chromosome chromosome, telomeric region chromosomal region condensed chromosome membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen DNA-dependent protein kinase-DNA ligase 4 complex
G [auth K], H [auth L], J [auth N], K [auth O]	DNA repair protein XRCC4	protein binding binding FHA domain binding protein domain specific binding DNA binding nucleic acid binding enzyme binding identical protein binding	cellular response to stimulus cellular response to metal ion cellular response to chemical stimulus response to lithium ion cellular response to lithium ion response to stimulus response to metal ion response to chemical cellular process response to X-ray response to ionizing radiation response to radiation response to abiotic stimulus localization cellular response to stimulus cellular response to metal ion cellular response to chemical stimulus response to lithium ion cellular response to lithium ion response to stimulus response to metal ion response to chemical cellular process response to X-ray response to ionizing radiation response to radiation response to abiotic stimulus localization protein localization to chromosome protein localization to organelle macromolecule localization protein localization to site of double-strand break intracellular protein localization positive regulation of molecular function regulation of molecular function regulation of catalytic activity biological regulation positive regulation of catalytic activity positive regulation of ligase activity primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process base-excision repair cellular response to stress DNA damage response response to stress metabolic process macromolecule metabolic process DNA repair double-strand break repair immune system development multicellular organismal process immunoglobulin production somatic cell DNA recombination multicellular organism development somatic recombination of immunoglobulin gene segments V(D)J recombination anatomical structure development somatic diversification of immune receptors system development developmental process production of molecular mediator of immune response DNA recombination gene expression macromolecule biosynthetic process somatic diversification of immunoglobulins immunoglobulin V(D)J recombination biosynthetic process immune system process somatic diversification of immune receptors via germline recombination within a single locus double-strand break repair via nonhomologous end joining	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle protein-containing complex nonhomologous end joining complex catalytic complex nucleus nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle organelle intracellular protein-containing complex cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle protein-containing complex nonhomologous end joining complex catalytic complex nucleus nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle organelle intracellular protein-containing complex DNA ligase IV complex DNA repair complex membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen DNA-dependent protein kinase-DNA ligase 4 complex site of double-strand break membraneless organelle site of DNA damage intracellular membraneless organelle chromosome
C, F [auth H]	X-ray repair cross-complementing protein 5	DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding binding double-stranded DNA binding nucleic acid binding transcription regulatory region nucleic acid binding RNA binding U3 snoRNA binding snoRNA binding ATP-dependent activity, acting on DNA catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding binding double-stranded DNA binding nucleic acid binding transcription regulatory region nucleic acid binding RNA binding U3 snoRNA binding snoRNA binding ATP-dependent activity, acting on DNA catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid catalytic activity ATP-dependent activity telomeric DNA binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding protein-containing complex binding ubiquitin protein ligase binding protein binding ubiquitin-like protein ligase binding enzyme binding DNA end binding nucleic acid conformation isomerase activity isomerase activity DNA helicase activity helicase activity macromolecular conformation isomerase activity damaged DNA binding enzyme regulator activity enzyme activator activity molecular function activator activity molecular function regulator activity pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process developmental process stem cell proliferation cell population proliferation cellular developmental process hemopoiesis cell differentiation anatomical structure development hematopoietic stem cell proliferation cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process developmental process stem cell proliferation cell population proliferation cellular developmental process hemopoiesis cell differentiation anatomical structure development hematopoietic stem cell proliferation cell development biological process involved in interspecies interaction between organisms immune response response to other organism defense response defense response to symbiont response to external stimulus response to biotic stimulus immune system process defense response to other organism innate immune response response to external biotic stimulus regulation of biological process regulation of cellular process regulation of smooth muscle cell proliferation regulation of cell population proliferation biological regulation muscle cell proliferation smooth muscle cell proliferation localization protein localization to chromosome protein localization to organelle macromolecule localization protein localization to chromosome, telomeric region intracellular protein localization positive regulation of nervous system development multicellular organismal process regulation of developmental process positive regulation of biological process regulation of cell differentiation regulation of neurogenesis regulation of cell development regulation of nervous system development positive regulation of developmental process multicellular organism development neurogenesis positive regulation of cell differentiation positive regulation of neurogenesis regulation of multicellular organismal process positive regulation of cellular process system development regulation of multicellular organismal development positive regulation of cell development nervous system development positive regulation of multicellular organismal process regulation of protein modification process positive regulation of phosphorylation regulation of catalytic activity regulation of protein phosphorylation positive regulation of protein metabolic process regulation of transferase activity positive regulation of phosphate metabolic process regulation of primary metabolic process positive regulation of metabolic process positive regulation of molecular function positive regulation of protein modification process phosphate-containing compound metabolic process positive regulation of macromolecule metabolic process protein metabolic process positive regulation of protein kinase activity phosphorus metabolic process protein modification process positive regulation of protein phosphorylation protein phosphorylation positive regulation of phosphorus metabolic process phosphorylation regulation of protein metabolic process positive regulation of catalytic activity primary metabolic process regulation of protein kinase activity regulation of macromolecule metabolic process regulation of molecular function positive regulation of kinase activity regulation of kinase activity macromolecule modification regulation of phosphorylation regulation of phosphorus metabolic process metabolic process macromolecule metabolic process regulation of metabolic process negative regulation of biological process RNA metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of DNA-templated transcription negative regulation of metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription negative regulation of RNA metabolic process regulation of defense response positive regulation of response to biotic stimulus regulation of response to biotic stimulus regulation of response to external stimulus positive regulation of response to stimulus positive regulation of response to external stimulus positive regulation of immune response regulation of response to stress regulation of immune system process positive regulation of immune system process positive regulation of innate immune response regulation of innate immune response regulation of response to stimulus positive regulation of defense response activation of innate immune response regulation of immune response activation of immune response telomere maintenance via telomerase telomere organization chromosome organization DNA metabolic process RNA-templated DNA biosynthetic process telomere maintenance via telomere lengthening telomere maintenance cellular component organization organelle organization cellular component organization or biogenesis DNA biosynthetic process cellular response to ionizing radiation cellular response to radiation cellular response to environmental stimulus response to ionizing radiation cellular response to gamma radiation response to radiation response to abiotic stimulus cellular response to abiotic stimulus response to gamma radiation regulation of telomere maintenance regulation of cellular component organization regulation of t-circle formation cellular component biogenesis cellular component assembly negative regulation of cellular component organization formation of extrachromosomal circular DNA regulation of chromosome organization regulation of cellular component biogenesis regulation of organelle organization negative regulation of t-circle formation telomere maintenance via telomere trimming t-circle formation negative regulation of DNA metabolic process regulation of DNA metabolic process DNA recombination stem cell differentiation hematopoietic stem cell differentiation hematopoietic progenitor cell differentiation recombinational repair DNA repair double-strand break repair response to peptide response to chemical response to cytokine response to leukemia inhibitory factor cellular response to cytokine stimulus cellular response to leukemia inhibitory factor double-strand break repair via nonhomologous end joining ribonucleoprotein complex biogenesis organelle assembly protein-containing complex organization membraneless organelle assembly ribosomal small subunit assembly protein-RNA complex assembly ribosomal small subunit biogenesis ribosome biogenesis protein-RNA complex organization cytosolic ribosome assembly protein-containing complex assembly small-subunit processome assembly cytosolic small ribosomal subunit assembly ribosome assembly	cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular organelle protein-containing complex organelle nucleus nuclear protein-containing complex Ku70:Ku80 complex intracellular membrane-bounded organelle preribosome cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular organelle protein-containing complex organelle nucleus nuclear protein-containing complex Ku70:Ku80 complex intracellular membrane-bounded organelle preribosome membrane-enclosed lumen intracellular membraneless organelle small-subunit processome nucleolus intracellular organelle lumen organelle lumen ribonucleoprotein complex membraneless organelle nuclear lumen catalytic complex transferase complex protein kinase complex transferase complex, transferring phosphorus-containing groups DNA-dependent protein kinase complex serine/threonine protein kinase complex chromosome chromosome, telomeric region chromosomal region cell periphery plasma membrane nucleoplasm nonhomologous end joining complex intracellular protein-containing complex DNA repair complex extracellular region DNA-dependent protein kinase-DNA ligase 4 complex vesicle lumen intracellular vesicle cytoplasmic vesicle lumen secretory granule lumen endomembrane system cytoplasmic vesicle secretory granule secretory vesicle vesicle protein-DNA complex telomere cap complex chromosome, telomeric repeat region nuclear telomere cap complex site of DNA damage
B, E [auth G]	X-ray repair cross-complementing protein 6	DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding binding double-stranded DNA binding nucleic acid binding transcription regulatory region nucleic acid binding catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid 5'-deoxyribose-5-phosphate lyase activity lyase activity catalytic activity carbon-oxygen lyase activity DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding binding double-stranded DNA binding nucleic acid binding transcription regulatory region nucleic acid binding catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid 5'-deoxyribose-5-phosphate lyase activity lyase activity catalytic activity carbon-oxygen lyase activity ATP-dependent activity, acting on DNA ATP-dependent activity telomeric DNA binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding protein-containing complex binding scaffold protein binding protein binding cyclin binding nucleic acid conformation isomerase activity isomerase activity DNA helicase activity helicase activity macromolecular conformation isomerase activity RNA binding damaged DNA binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides	biological process involved in interspecies interaction between organisms response to stimulus immune response response to other organism defense response defense response to symbiont response to external stimulus response to biotic stimulus immune system process defense response to other organism response to stress innate immune response response to external biotic stimulus regulation of biological process biological process involved in interspecies interaction between organisms response to stimulus immune response response to other organism defense response defense response to symbiont response to external stimulus response to biotic stimulus immune system process defense response to other organism response to stress innate immune response response to external biotic stimulus regulation of biological process cell population proliferation regulation of cellular process regulation of smooth muscle cell proliferation regulation of cell population proliferation biological regulation muscle cell proliferation cellular process smooth muscle cell proliferation response to X-ray cellular response to stimulus cellular response to ionizing radiation cellular response to radiation cellular response to environmental stimulus cellular response to X-ray response to ionizing radiation response to radiation response to abiotic stimulus cellular response to abiotic stimulus regulation of protein modification process positive regulation of phosphorylation regulation of catalytic activity regulation of protein phosphorylation positive regulation of protein metabolic process positive regulation of biological process regulation of transferase activity positive regulation of phosphate metabolic process regulation of primary metabolic process positive regulation of metabolic process positive regulation of molecular function positive regulation of protein modification process phosphate-containing compound metabolic process positive regulation of macromolecule metabolic process protein metabolic process positive regulation of protein kinase activity phosphorus metabolic process protein modification process positive regulation of protein phosphorylation positive regulation of cellular process protein phosphorylation positive regulation of phosphorus metabolic process phosphorylation regulation of protein metabolic process positive regulation of catalytic activity primary metabolic process regulation of protein kinase activity regulation of macromolecule metabolic process regulation of molecular function positive regulation of kinase activity regulation of kinase activity macromolecule modification regulation of phosphorylation regulation of phosphorus metabolic process metabolic process macromolecule metabolic process regulation of metabolic process response to osmotic stress cellular response to salt stress cellular hyperosmotic salinity response cellular response to chemical stress cellular response to osmotic stress response to salt stress hyperosmotic salinity response cellular response to chemical stimulus hyperosmotic response cellular hyperosmotic response cellular response to stress response to chemical regulation of leukocyte differentiation multicellular organismal process cellular developmental process regulation of developmental process regulation of leukocyte activation cell development regulation of cell activation regulation of cell differentiation mononuclear cell differentiation lymphocyte differentiation lymphocyte activation regulation of cell development leukocyte activation positive regulation of developmental process multicellular organism development positive regulation of lymphocyte activation positive regulation of cell activation positive regulation of hemopoiesis positive regulation of cell differentiation cell differentiation anatomical structure development positive regulation of leukocyte activation regulation of immune system process regulation of multicellular organismal process positive regulation of immune system process developmental process regulation of lymphocyte differentiation regulation of multicellular organismal development hemopoiesis cell activation positive regulation of cell development regulation of hemopoiesis positive regulation of multicellular organismal process positive regulation of leukocyte differentiation positive regulation of lymphocyte differentiation leukocyte differentiation regulation of lymphocyte activation positive regulation of DNA-templated transcription RNA metabolic process positive regulation of macromolecule biosynthetic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of biosynthetic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of RNA biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription negative regulation of biological process negative regulation of RNA biosynthetic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process negative regulation of macromolecule metabolic process negative regulation of DNA-templated transcription negative regulation of metabolic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of RNA metabolic process regulation of defense response positive regulation of response to biotic stimulus regulation of response to biotic stimulus regulation of response to external stimulus positive regulation of response to stimulus positive regulation of response to external stimulus positive regulation of immune response regulation of response to stress positive regulation of innate immune response regulation of innate immune response regulation of response to stimulus positive regulation of defense response activation of innate immune response regulation of immune response activation of immune response cellular response to gamma radiation response to gamma radiation double-strand break repair via classical nonhomologous end joining double-strand break repair double-strand break repair via nonhomologous end joining DNA metabolic process DNA damage response DNA repair telomere organization chromosome organization telomere maintenance cellular component organization organelle organization cellular component organization or biogenesis DNA recombination recombinational repair	cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol protein-containing complex transcription regulator complex membrane-bounded organelle intracellular organelle organelle nucleus nuclear protein-containing complex Ku70:Ku80 complex intracellular membrane-bounded organelle cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol protein-containing complex transcription regulator complex membrane-bounded organelle intracellular organelle organelle nucleus nuclear protein-containing complex Ku70:Ku80 complex intracellular membrane-bounded organelle catalytic complex transferase complex protein kinase complex transferase complex, transferring phosphorus-containing groups DNA-dependent protein kinase complex serine/threonine protein kinase complex membraneless organelle intracellular membraneless organelle chromosome chromosome, telomeric region chromosomal region membrane-enclosed lumen nucleolus intracellular organelle lumen organelle lumen nuclear lumen intracellular vesicle ficolin-1-rich granule endomembrane system cytoplasmic vesicle ficolin-1-rich granule lumen secretory granule secretory vesicle vesicle nucleoplasm nonhomologous end joining complex intracellular protein-containing complex DNA repair complex extracellular region DNA-dependent protein kinase-DNA ligase 4 complex vesicle lumen cytoplasmic vesicle lumen secretory granule lumen protein-DNA complex telomere cap complex chromosome, telomeric repeat region nuclear telomere cap complex
A, D [auth F]	DNA-dependent protein kinase catalytic subunit,DNA-dependent protein kinase catalytic subunit,DNA-PKcs	RNA binding binding U3 snoRNA binding snoRNA binding nucleic acid binding protein serine/threonine kinase activity catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity DNA-dependent protein kinase activity catalytic activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups RNA binding binding U3 snoRNA binding snoRNA binding nucleic acid binding protein serine/threonine kinase activity catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity DNA-dependent protein kinase activity catalytic activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding protein binding protein domain specific binding transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding DNA-binding transcription factor binding histone H2AXS139 kinase activity histone modifying activity histone kinase activity histone H2AX kinase activity protein serine kinase activity DNA binding double-stranded DNA binding enzyme binding	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process developmental process multicellular organism development multicellular organismal process head development central nervous system development anatomical structure development animal organ development brain development cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process developmental process multicellular organism development multicellular organismal process head development central nervous system development anatomical structure development animal organ development brain development nervous system development system development heart development circulatory system development cellular developmental process hemopoiesis B cell activation cell activation cell development B cell lineage commitment mononuclear cell differentiation lymphocyte differentiation lymphocyte activation leukocyte activation B cell differentiation cell differentiation immune system process cell fate commitment leukocyte differentiation macromolecule modification metabolic process primary metabolic process protein metabolic process macromolecule metabolic process protein modification process protein destabilization regulation of protein stability biological regulation regulation of biological quality regulation of cellular process regulation of double-strand break repair regulation of cellular response to stress positive regulation of biological process regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of response to stimulus positive regulation of metabolic process positive regulation of DNA repair regulation of response to stress positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process regulation of double-strand break repair via nonhomologous end joining DNA repair double-strand break repair regulation of biological process positive regulation of double-strand break repair via nonhomologous end joining double-strand break repair via nonhomologous end joining DNA metabolic process regulation of macromolecule metabolic process nucleic acid metabolic process positive regulation of double-strand break repair regulation of DNA repair positive regulation of DNA metabolic process regulation of response to stimulus regulation of metabolic process regulation of DNA metabolic process regulation of protein modification process regulation of protein phosphorylation negative regulation of biological process negative regulation of phosphate metabolic process phosphate-containing compound metabolic process negative regulation of protein modification process negative regulation of cellular process phosphorus metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process protein phosphorylation phosphorylation regulation of protein metabolic process negative regulation of metabolic process negative regulation of protein phosphorylation negative regulation of phosphorus metabolic process regulation of phosphorylation regulation of phosphorus metabolic process negative regulation of phosphorylation positive regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death cell death positive regulation of apoptotic process apoptotic process programmed cell death biological process involved in interspecies interaction between organisms immune response response to other organism defense response defense response to symbiont response to external stimulus response to biotic stimulus defense response to other organism innate immune response response to external biotic stimulus cell population proliferation regulation of smooth muscle cell proliferation regulation of cell population proliferation muscle cell proliferation smooth muscle cell proliferation peptidyl-amino acid modification peptidyl-threonine modification peptidyl-threonine phosphorylation regulation of cell cycle phase transition DNA damage checkpoint signaling signaling negative regulation of cell cycle cell cycle phase transition regulation of cell cycle G1/S phase transition cell cycle G1/S phase transition intracellular signal transduction mitotic cell cycle negative regulation of mitotic cell cycle cell communication regulation of mitotic cell cycle mitotic DNA integrity checkpoint signaling mitotic DNA damage checkpoint signaling negative regulation of cell cycle phase transition signal transduction cell cycle regulation of cell cycle cell cycle process negative regulation of G1/S transition of mitotic cell cycle mitotic G1/S transition checkpoint signaling negative regulation of mitotic cell cycle phase transition regulation of cell cycle process negative regulation of cell cycle G1/S phase transition DNA integrity checkpoint signaling negative regulation of cell cycle process cell cycle checkpoint signaling regulation of mitotic cell cycle phase transition mitotic cell cycle checkpoint signaling mitotic G1 DNA damage checkpoint signaling mitotic cell cycle process regulation of G1/S transition of mitotic cell cycle signal transduction in response to DNA damage G1/S transition of mitotic cell cycle mitotic cell cycle phase transition immature B cell differentiation T cell differentiation in thymus T cell activation T cell differentiation T cell lineage commitment regulation of developmental process homeostatic process regulation of cell differentiation regulation of cell development positive regulation of developmental process positive regulation of cell differentiation regulation of immune system process regulation of multicellular organismal process myeloid cell homeostasis erythrocyte homeostasis regulation of multicellular organismal development regulation of myeloid cell differentiation erythrocyte differentiation regulation of erythrocyte differentiation positive regulation of erythrocyte differentiation multicellular organismal-level homeostasis myeloid cell differentiation positive regulation of myeloid cell differentiation regulation of hemopoiesis homeostasis of number of cells reproductive process developmental process involved in reproduction programmed cell death involved in cell development ectopic germ cell programmed cell death peptidyl-serine modification peptidyl-serine phosphorylation double-strand break repair via alternative nonhomologous end joining telomere organization chromosome organization telomere maintenance cellular component organization organelle organization telomere capping cellular component organization or biogenesis maturation of 5.8S rRNA ribonucleoprotein complex biogenesis RNA metabolic process rRNA processing gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process cellular component biogenesis RNA biosynthetic process ribosome biogenesis nucleic acid biosynthetic process biosynthetic process RNA processing rRNA metabolic process positive regulation of response to biotic stimulus pattern recognition receptor signaling pathway regulation of signal transduction cGAS/STING signaling pathway immune response-activating signaling pathway positive regulation of immune response positive regulation of immune system process innate immune response-activating signaling pathway regulation of innate immune response negative regulation of cGAS/STING signaling pathway regulation of pattern recognition receptor signaling pathway positive regulation of defense response activation of innate immune response regulation of immune response activation of immune response cytoplasmic pattern recognition receptor signaling pathway regulation of defense response regulation of response to biotic stimulus regulation of response to external stimulus intracellular receptor signaling pathway negative regulation of signaling negative regulation of cytoplasmic pattern recognition receptor signaling pathway negative regulation of intracellular signal transduction regulation of cytoplasmic pattern recognition receptor signaling pathway negative regulation of cell communication positive regulation of response to external stimulus immune response-regulating signaling pathway regulation of intracellular signal transduction regulation of signaling positive regulation of innate immune response negative regulation of response to stimulus negative regulation of signal transduction negative regulation of immune system process regulation of cell communication regulation of leukocyte differentiation regulation of leukocyte activation regulation of cell activation positive regulation of lymphocyte activation positive regulation of cell activation positive regulation of hemopoiesis positive regulation of leukocyte activation regulation of lymphocyte differentiation positive regulation of cell development positive regulation of multicellular organismal process positive regulation of leukocyte differentiation positive regulation of lymphocyte differentiation regulation of lymphocyte activation positive regulation of DNA-templated transcription positive regulation of macromolecule biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of biosynthetic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process regulation of gene expression positive regulation of RNA biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription immune system development somatic cell DNA recombination V(D)J recombination T cell receptor V(D)J recombination somatic diversification of T cell receptor genes somatic diversification of immune receptors DNA recombination somatic diversification of immune receptors via germline recombination within a single locus somatic recombination of T cell receptor gene segments pro-B cell differentiation lymphoid progenitor cell differentiation hematopoietic progenitor cell differentiation regulation of hematopoietic stem cell differentiation stem cell differentiation regulation of stem cell differentiation hematopoietic stem cell differentiation regulation of hematopoietic progenitor cell differentiation somitogenesis epithelium development chordate embryonic development segmentation anterior/posterior pattern specification pattern specification process embryo development tissue development regionalization anatomical structure morphogenesis embryo development ending in birth or egg hatching somite development anatomical structure formation involved in morphogenesis rhythmic process circadian rhythm regulation of circadian rhythm negative regulation of programmed cell death negative regulation of apoptotic process positive regulation of protein metabolic process positive regulation of translation protein biosynthetic process post-transcriptional regulation of gene expression translation positive regulation of gene expression regulation of translation apoptotic signaling pathway intrinsic apoptotic signaling pathway in response to DNA damage intrinsic apoptotic signaling pathway regulation of epithelial cell proliferation epithelial cell proliferation response to ionizing radiation response to radiation response to abiotic stimulus response to gamma radiation regulation of platelet formation platelet morphogenesis cell morphogenesis regulation of cell morphogenesis positive regulation of platelet formation regulation of anatomical structure morphogenesis positive regulation of cell morphogenesis platelet formation cellular response to nitrogen compound response to endogenous stimulus response to peptide hormone response to oxygen-containing compound cellular response to peptide hormone stimulus response to nitrogen compound cellular response to oxygen-containing compound cellular response to endogenous stimulus cellular response to chemical stimulus response to hormone response to chemical response to insulin cellular response to insulin stimulus cellular response to hormone stimulus immunoglobulin production somatic recombination of immunoglobulin gene segments production of molecular mediator of immune response somatic diversification of immunoglobulins immunoglobulin V(D)J recombination organelle assembly protein-containing complex organization membraneless organelle assembly ribosomal small subunit assembly protein-RNA complex assembly ribosomal small subunit biogenesis protein-RNA complex organization cellular component assembly cytosolic ribosome assembly protein-containing complex assembly small-subunit processome assembly cytosolic small ribosomal subunit assembly ribosome assembly	cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol protein-containing complex transcription regulator complex intracellular organelle organelle membraneless organelle intracellular membraneless organelle chromatin chromosome membrane-bounded organelle cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol protein-containing complex transcription regulator complex intracellular organelle organelle membraneless organelle intracellular membraneless organelle chromatin chromosome membrane-bounded organelle preribosome nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle small-subunit processome nucleolus intracellular organelle lumen organelle lumen ribonucleoprotein complex nuclear lumen catalytic complex transferase complex protein kinase complex transferase complex, transferring phosphorus-containing groups DNA-dependent protein kinase complex serine/threonine protein kinase complex chromosome, telomeric region chromosomal region nucleoplasm nonhomologous end joining complex intracellular protein-containing complex DNA repair complex DNA-dependent protein kinase-DNA ligase 4 complex protein-DNA complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
M [auth Q], N [auth R]	IPR052287	Non-homologous end-joining factor	Family
M [auth Q], N [auth R]	IPR015381	XLF-like, N-terminal	Domain
M [auth Q], N [auth R]	IPR038051	XRCC4-like, N-terminal domain superfamily	Homologous Superfamily
M [auth Q], N [auth R]	IPR053829	XLF-like, coiled-coil region	Domain
I [auth M], L [auth P]	IPR029710	DNA ligase 4	Family
I [auth M], L [auth P]	IPR012310	DNA ligase, ATP-dependent, central	Domain
I [auth M], L [auth P]	IPR012308	DNA ligase, ATP-dependent, N-terminal	Domain
I [auth M], L [auth P]	IPR044125	DNA Ligase 4, adenylation domain	Domain
I [auth M], L [auth P]	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily
I [auth M], L [auth P]	IPR021536	DNA ligase IV domain	Domain
I [auth M], L [auth P]	IPR036599	DNA ligase, ATP-dependent, N-terminal domain superfamily	Homologous Superfamily
I [auth M], L [auth P]	IPR001357	BRCT domain	Domain
I [auth M], L [auth P]	IPR036420	BRCT domain superfamily	Homologous Superfamily
I [auth M], L [auth P]	IPR016059	DNA ligase, ATP-dependent, conserved site	Conserved Site
I [auth M], L [auth P]	IPR000977	DNA ligase, ATP-dependent	Family
I [auth M], L [auth P]	IPR012309	DNA ligase, ATP-dependent, C-terminal	Domain
G [auth K], H [auth L], J [auth N], K [auth O]	IPR053963	XRCC4, C-terminal domain	Domain
G [auth K], H [auth L], J [auth N], K [auth O]	IPR038051	XRCC4-like, N-terminal domain superfamily	Homologous Superfamily
G [auth K], H [auth L], J [auth N], K [auth O]	IPR009089	XRCC4, N-terminal domain superfamily	Homologous Superfamily
G [auth K], H [auth L], J [auth N], K [auth O]	IPR014751	DNA repair protein XRCC4-like, C-terminal	Homologous Superfamily
G [auth K], H [auth L], J [auth N], K [auth O]	IPR053961	XRCC4, N-terminal domain	Domain
G [auth K], H [auth L], J [auth N], K [auth O]	IPR010585	DNA repair protein XRCC4	Family
G [auth K], H [auth L], J [auth N], K [auth O]	IPR053962	XRCC4, coiled-coil domain	Domain
C, F [auth H]	IPR036494	Ku, C-terminal domain superfamily	Homologous Superfamily
C, F [auth H]	IPR016194	SPOC-like, C-terminal domain superfamily	Homologous Superfamily
C, F [auth H]	IPR036465	von Willebrand factor A-like domain superfamily	Homologous Superfamily
C, F [auth H]	IPR002035	von Willebrand factor, type A	Domain
C, F [auth H]	IPR005161	Ku70/Ku80, N-terminal alpha/beta	Domain
C, F [auth H]	IPR014893	Ku, C-terminal	Domain
C, F [auth H]	IPR006164	Ku70/Ku80, DNA-binding domain	Domain
C, F [auth H]	IPR005160	Ku70/Ku80 C-terminal arm	Domain
C, F [auth H]	IPR024193	Ku80	Family
B, E [auth G]	IPR016194	SPOC-like, C-terminal domain superfamily	Homologous Superfamily
B, E [auth G]	IPR027388	Ku70, bridge and pillars domain superfamily	Homologous Superfamily
B, E [auth G]	IPR036361	SAP domain superfamily	Homologous Superfamily
B, E [auth G]	IPR006165	Ku70	Family
B, E [auth G]	IPR036465	von Willebrand factor A-like domain superfamily	Homologous Superfamily
B, E [auth G]	IPR005161	Ku70/Ku80, N-terminal alpha/beta	Domain
B, E [auth G]	IPR006164	Ku70/Ku80, DNA-binding domain	Domain
B, E [auth G]	IPR047087	Ku70, core domain	Domain
B, E [auth G]	IPR005160	Ku70/Ku80 C-terminal arm	Domain
B, E [auth G]	IPR003034	SAP domain	Domain
A, D [auth F]	IPR016024	Armadillo-type fold	Homologous Superfamily
A, D [auth F]	IPR003151	PIK-related kinase, FAT	Domain
A, D [auth F]	IPR046803	DNA-dependent protein kinase catalytic subunit, CC1/2	Domain
A, D [auth F]	IPR046804	DNA-PKcs, N-terminal	Domain
A, D [auth F]	IPR045581	DNA-dependent protein kinase catalytic subunit, CC5	Domain
A, D [auth F]	IPR003152	FATC domain	Domain
A, D [auth F]	IPR012582	DNA-dependent protein kinase catalytic subunit, CC3	Domain
A, D [auth F]	IPR011989	Armadillo-like helical	Homologous Superfamily
A, D [auth F]	IPR000403	Phosphatidylinositol 3-/4-kinase, catalytic domain	Domain
A, D [auth F]	IPR050517	DNA Damage Response and Repair Kinase	Family
A, D [auth F]	IPR018936	Phosphatidylinositol 3-/4-kinase, conserved site	Conserved Site
A, D [auth F]	IPR036940	Phosphatidylinositol 3-/4-kinase, catalytic domain superfamily	Homologous Superfamily
A, D [auth F]	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
A, D [auth F]	IPR037706	DNA-dependent protein kinase catalytic subunit, catalytic domain	Domain
A, D [auth F]	IPR014009	PIK-related kinase, FAT domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
M [auth Q], N [auth R]	Pharos: Q9H9Q4	Cernunnos-XLF deficiency microcephaly DNA ligase IV deficiency Primary microcephaly intellectual disability
I [auth M], L [auth P]	Pharos: P49917	DNA ligase IV deficiency plasma cell myeloma Omenn syndrome Dubowitz syndrome progressive supranuclear palsy Alzheimer disease hematopoietic and lymphoid system neoplasm leukemia pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia plasma cell neoplasm severe combined immunodeficiency due to DCLRE1C deficiency atypical teratoid rhabdoid tumor Gaucher disease intellectual disability microcephaly DNA ligase IV deficiency plasma cell myeloma Omenn syndrome Dubowitz syndrome progressive supranuclear palsy Alzheimer disease hematopoietic and lymphoid system neoplasm leukemia pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia plasma cell neoplasm severe combined immunodeficiency due to DCLRE1C deficiency atypical teratoid rhabdoid tumor Gaucher disease intellectual disability microcephaly osteosarcoma Pick disease Primary microcephaly glioblastoma large cell medulloblastoma myeloid neoplasm pancreatic intraductal papillary-mucinous neoplasm
G [auth K], H [auth L], J [auth N], K [auth O]	Pharos: Q13426	short stature, microcephaly, and endocrine dysfunction DNA ligase IV deficiency Chromosome Aberrations pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia schizophrenia astrocytic tumor congestive heart failure isolated growth hormone deficiency type IA malignant mesothelioma microcephalic primordial dwarfism-insulin resistance syndrome pancreatic intraductal papillary-mucinous carcinoma pilocytic astrocytoma primitive neuroectodermal tumor malignant colon neoplasm malignant pancreatic neoplasm short stature, microcephaly, and endocrine dysfunction DNA ligase IV deficiency Chromosome Aberrations pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia schizophrenia astrocytic tumor congestive heart failure isolated growth hormone deficiency type IA malignant mesothelioma microcephalic primordial dwarfism-insulin resistance syndrome pancreatic intraductal papillary-mucinous carcinoma pilocytic astrocytoma primitive neuroectodermal tumor malignant colon neoplasm malignant pancreatic neoplasm oligodendroglioma pancreatic intraductal papillary-mucinous neoplasm pituitary cancer psoriasis tuberculosis intellectual disability malignant ependymoma medulloblastoma osteosarcoma
C, F [auth H]	Pharos: P13010	primitive neuroectodermal tumor Adenocarcinoma of Lung atypical teratoid rhabdoid tumor large cell medulloblastoma lupus erythematosus medulloblastoma ovarian cancer systemic lupus erythematosus breast cancer glioblastoma lung adenocarcinoma lymphoplasmacytic lymphoma myopathy plasma cell myeloma breast carcinoma primitive neuroectodermal tumor Adenocarcinoma of Lung atypical teratoid rhabdoid tumor large cell medulloblastoma lupus erythematosus medulloblastoma ovarian cancer systemic lupus erythematosus breast cancer glioblastoma lung adenocarcinoma lymphoplasmacytic lymphoma myopathy plasma cell myeloma breast carcinoma Hodgkins lymphoma lung cancer malignant glioma osteosarcoma
B, E [auth G]	Pharos: P12956	Adenocarcinoma of Lung lupus erythematosus systemic lupus erythematosus lymphoplasmacytic lymphoma lung adenocarcinoma ovarian cancer
A, D [auth F]	Pharos: P78527	severe combined immunodeficiency due to DNA-PKcs deficiency hepatic encephalopathy adenoid cystic carcinoma severe combined immunodeficiency Massive Hepatic Necrosis poisoning hepatic coma lung adenocarcinoma prostate cancer salivary gland adenoid cystic carcinoma squamous cell carcinoma lung cancer malignant colon neoplasm metastatic melanoma non-small cell lung carcinoma severe combined immunodeficiency due to DNA-PKcs deficiency hepatic encephalopathy adenoid cystic carcinoma severe combined immunodeficiency Massive Hepatic Necrosis poisoning hepatic coma lung adenocarcinoma prostate cancer salivary gland adenoid cystic carcinoma squamous cell carcinoma lung cancer malignant colon neoplasm metastatic melanoma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous neoplasm breast carcinoma squamous cell lung carcinoma glioblastoma large cell medulloblastoma lung disease myopathy osteosarcoma astrocytic tumor cancer psoriasis colorectal adenocarcinoma drug-induced liver injury medulloblastoma nasopharyngeal carcinoma ovarian cancer attention deficit hyperactivity disorder, inattentive type