5A9J | pdb_00005a9j

Crystal structure of the Helicase domain of human DNA polymerase theta, apo-form

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	PRK00254	e5a9jD5	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PRK00254	ECOD (1.6)
D	KOG0950_2nd	e5a9jD1	A: alpha arrays	X: HhH/H2TH	H: SAM-like subdomain in Sec63-like proteins (From Topology)	T: SAM-like subdomain in Sec63-like proteins	F: KOG0950_2nd	ECOD (1.6)
D	KOG0950_1st	e5a9jD3	A: alpha arrays	X: Sec63 N-terminal subdomain-like (From Topology)	H: Sec63 N-terminal subdomain-like (From Topology)	T: Sec63 N-terminal subdomain-like	F: KOG0950_1st	ECOD (1.6)
D	DEAD_1	e5a9jD4	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: DEAD_1	ECOD (1.6)
D	Helicase_C_5	e5a9jD2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Helicase_C_5	ECOD (1.6)
C	PRK00254	e5a9jC4	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PRK00254	ECOD (1.6)
C	KOG0950_2nd	e5a9jC3	A: alpha arrays	X: HhH/H2TH	H: SAM-like subdomain in Sec63-like proteins (From Topology)	T: SAM-like subdomain in Sec63-like proteins	F: KOG0950_2nd	ECOD (1.6)
C	KOG0950_1st	e5a9jC2	A: alpha arrays	X: Sec63 N-terminal subdomain-like (From Topology)	H: Sec63 N-terminal subdomain-like (From Topology)	T: Sec63 N-terminal subdomain-like	F: KOG0950_1st	ECOD (1.6)
C	DEAD_1	e5a9jC5	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: DEAD_1	ECOD (1.6)
C	Helicase_C_5	e5a9jC1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Helicase_C_5	ECOD (1.6)
B	PRK00254	e5a9jB5	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PRK00254	ECOD (1.6)
B	KOG0950_2nd	e5a9jB4	A: alpha arrays	X: HhH/H2TH	H: SAM-like subdomain in Sec63-like proteins (From Topology)	T: SAM-like subdomain in Sec63-like proteins	F: KOG0950_2nd	ECOD (1.6)
B	KOG0950_1st	e5a9jB1	A: alpha arrays	X: Sec63 N-terminal subdomain-like (From Topology)	H: Sec63 N-terminal subdomain-like (From Topology)	T: Sec63 N-terminal subdomain-like	F: KOG0950_1st	ECOD (1.6)
B	DEAD_1	e5a9jB2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: DEAD_1	ECOD (1.6)
B	Helicase_C_5	e5a9jB3	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Helicase_C_5	ECOD (1.6)
A	PRK00254	e5a9jA1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PRK00254	ECOD (1.6)
A	KOG0950_2nd	e5a9jA5	A: alpha arrays	X: HhH/H2TH	H: SAM-like subdomain in Sec63-like proteins (From Topology)	T: SAM-like subdomain in Sec63-like proteins	F: KOG0950_2nd	ECOD (1.6)
A	KOG0950_1st	e5a9jA4	A: alpha arrays	X: Sec63 N-terminal subdomain-like (From Topology)	H: Sec63 N-terminal subdomain-like (From Topology)	T: Sec63 N-terminal subdomain-like	F: KOG0950_1st	ECOD (1.6)
A	DEAD_1	e5a9jA3	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: DEAD_1	ECOD (1.6)
A	Helicase_C_5	e5a9jA2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Helicase_C_5	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (utative)
A	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF00270	DEAD/DEAH box helicase (DEAD)	DEAD/DEAH box helicase	Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome ...	Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.	Domain
A, B, C, D	PF20470	Helix-turn-helix domain (HTH_61)	Helix-turn-helix domain	This entry represents a presumed helix-turn-helix domain found in DNA polymerase theta.	Domain
A, B, C, D	PF21099	DNA_pol_Q helicase like region helical domain (POLQ_helical)	DNA_pol_Q helicase like region helical domain	DNA polymerase theta (Pol Theta, encoded the POLQ gene) is one of ~15 DNA polymerases in the human genome. PolQ is distinct among human DNA polymerases, exhibiting not only a C-terminal DNA polymerase domain but also an N-terminal domain exhibiting s ...	DNA polymerase theta (Pol Theta, encoded the POLQ gene) is one of ~15 DNA polymerases in the human genome. PolQ is distinct among human DNA polymerases, exhibiting not only a C-terminal DNA polymerase domain but also an N-terminal domain exhibiting similarity and motifs typical of superfamily 2 (SF2) helicases [1]. This entry corresponds to the helical domain [1].	Domain
A, B, C, D	PF00271	Helicase conserved C-terminal domain (Helicase_C)	Helicase conserved C-terminal domain	The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	DNA POLYMERASE THETA	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 chromatin binding binding ATP-dependent activity, acting on DNA nucleic acid conformation isomerase activity isomerase activity DNA helicase activity helicase activity macromolecular conformation isomerase activity 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 chromatin binding binding ATP-dependent activity, acting on DNA nucleic acid conformation isomerase activity isomerase activity DNA helicase activity helicase activity macromolecular conformation isomerase activity ATP-dependent activity DNA binding damaged DNA binding nucleic acid binding DNA-directed DNA polymerase activity DNA polymerase activity transferase activity nucleotidyltransferase activity transferase activity, transferring phosphorus-containing groups cation binding magnesium ion binding ion binding metal ion binding small molecule binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide 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 single-stranded DNA helicase activity RNA-directed DNA polymerase activity identical protein binding protein binding	cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process regulation of DNA recombination regulation of cellular process regulation of double-strand break repair regulation of cellular response to stress negative regulation of biological process regulation of primary metabolic process negative regulation of DNA repair nucleobase-containing compound metabolic process cellular response to stimulus cellular response to stress response to stimulus DNA damage response response to stress cellular process regulation of DNA recombination regulation of cellular process regulation of double-strand break repair regulation of cellular response to stress negative regulation of biological process regulation of primary metabolic process negative regulation of DNA repair nucleobase-containing compound metabolic process regulation of response to stress negative regulation of double-strand break repair negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process recombinational repair regulation of nucleobase-containing compound metabolic process negative regulation of double-strand break repair via homologous recombination double-strand break repair via homologous recombination DNA repair negative regulation of macromolecule metabolic process double-strand break repair regulation of biological process negative regulation of response to stimulus negative regulation of metabolic process DNA recombination biological regulation primary metabolic process DNA metabolic process regulation of macromolecule metabolic process nucleic acid metabolic process regulation of DNA repair regulation of double-strand break repair via homologous recombination negative regulation of DNA recombination regulation of response to stimulus metabolic process negative regulation of DNA metabolic process macromolecule metabolic process regulation of metabolic process regulation of DNA metabolic process DNA-templated DNA replication DNA-templated DNA replication maintenance of fidelity DNA replication replication fork processing immune system development developmental process production of molecular mediator of immune response multicellular organismal process immunoglobulin production somatic diversification of immune receptors via somatic mutation gene expression macromolecule biosynthetic process somatic diversification of immunoglobulins multicellular organism development biosynthetic process immune system process anatomical structure development somatic diversification of immune receptors somatic hypermutation of immunoglobulin genes system development translesion synthesis nucleobase-containing compound biosynthetic process DNA damage tolerance DNA synthesis involved in DNA replication nucleic acid biosynthetic process error-prone translesion synthesis DNA biosynthetic process base-excision repair double-strand break repair via nonhomologous end joining double-strand break repair via alternative nonhomologous end joining cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein complex oligomerization protein-containing complex assembly protein homooligomerization cellular component organization or biogenesis	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen Golgi apparatus endomembrane system mitochondrion intracellular membraneless organelle nucleoid mitochondrial matrix membraneless organelle mitochondrial nucleoid site of double-strand break site of DNA damage chromosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR036397	Ribonuclease H superfamily	Homologous Superfamily
A, B, C, D	IPR048960	POLQ-like, helical domain	Domain
A, B, C, D	IPR002298	DNA polymerase A	Family
A, B, C, D	IPR011545	DEAD/DEAH-box helicase domain	Domain
A, B, C, D	IPR019760	DNA-directed DNA polymerase, family A, conserved site	Conserved Site
A, B, C, D	IPR012337	Ribonuclease H-like superfamily	Homologous Superfamily
A, B, C, D	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B, C, D	IPR001650	Helicase, C-terminal domain-like	Domain
A, B, C, D	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
A, B, C, D	IPR014001	Helicase superfamily 1/2, ATP-binding domain	Domain
A, B, C, D	IPR001098	DNA-directed DNA polymerase, family A, palm domain	Domain
A, B, C, D	IPR046931	DNA polymerase theta-like, helix-turn-helix domain	Domain
A, B, C, D	IPR057220	Domain of unknown function DUF7898	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D	Pharos: O75417	breast cancer adrenal cortex carcinoma glioblastoma malignant colon neoplasm medulloblastoma ovarian cancer psoriasis atypical teratoid rhabdoid tumor large cell medulloblastoma malignant glioma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous neoplasm lung cancer malignant mesothelioma osteosarcoma breast cancer adrenal cortex carcinoma glioblastoma malignant colon neoplasm medulloblastoma ovarian cancer psoriasis atypical teratoid rhabdoid tumor large cell medulloblastoma malignant glioma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous neoplasm lung cancer malignant mesothelioma osteosarcoma primitive neuroectodermal tumor