7OUH

Structure of the STLV intasome:B56 complex bound to the strand-transfer inhibitor bictegravir

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C [auth F]	SCOP2B Superfamily	ARM repeat-like	8043105	3000116	SCOP2B (2022-06-29)
H [auth C]	SCOP2B Superfamily	ARM repeat-like	8043105	3000116	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)
A [auth D]	PF00552	e7ouhD3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: PF00552	ECOD (1.6)
A [auth D]	PF02022	e7ouhD2	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: PF02022	ECOD (1.6)
A [auth D]	PF00665	e7ouhD1	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: PF00665	ECOD (1.6)
B [auth E]	PF00552	e7ouhE2	A: beta barrels	X: SH3	H: SH3	T: SH3	F: PF00552	ECOD (1.6)
B [auth E]	PF02022	e7ouhE3	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: PF02022	ECOD (1.6)
B [auth E]	PF00665	e7ouhE1	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: PF00665	ECOD (1.6)
F [auth A]	PF00552	e7ouhA3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: PF00552	ECOD (1.6)
F [auth A]	PF02022	e7ouhA1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: PF02022	ECOD (1.6)
F [auth A]	PF00665	e7ouhA2	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: PF00665	ECOD (1.6)
G [auth B]	PF00552	e7ouhB2	A: beta barrels	X: SH3	H: SH3	T: SH3	F: PF00552	ECOD (1.6)
G [auth B]	PF02022	e7ouhB3	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: PF02022	ECOD (1.6)
G [auth B]	PF00665	e7ouhB1	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: PF00665	ECOD (1.6)
C [auth F]	PF01603	e7ouhF1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PF01603	ECOD (1.6)
H [auth C]	PF01603	e7ouhC1	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PF01603	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth D], B [auth E], F [auth A], G [auth B]	PF02022	Integrase Zinc binding domain (Integrase_Zn)	Integrase Zinc binding domain	Integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. This domain is the amino-terminal domain zinc binding domain. The central domain is the catalytic domain Pfam:PF00665 ...	Integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. This domain is the amino-terminal domain zinc binding domain. The central domain is the catalytic domain Pfam:PF00665. The carboxyl terminal domain is a DNA binding domain Pfam:PF00552.	Domain
A [auth D], B [auth E], F [auth A], G [auth B]	PF00552	Integrase DNA binding domain (IN_DBD_C)	Integrase DNA binding domain	Integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. The amino-terminal domain is a zinc binding domain. The central domain is the catalytic domain Pfam:PF00665. This do ...	Integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. The amino-terminal domain is a zinc binding domain. The central domain is the catalytic domain Pfam:PF00665. This domain is the carboxyl terminal domain that is a non-specific DNA binding domain [1].	Domain
A [auth D], B [auth E], F [auth A], G [auth B]	PF00665	Integrase core domain (rve)	Integrase core domain	Integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. The amino-terminal domain is a zinc binding domain Pfam:PF02022. This domain is the central catalytic domain. The ca ...	Integrase mediates integration of a DNA copy of the viral genome into the host chromosome. Integrase is composed of three domains. The amino-terminal domain is a zinc binding domain Pfam:PF02022. This domain is the central catalytic domain. The carboxyl terminal domain that is a non-specific DNA binding domain Pfam:PF00552. The catalytic domain acts as an endonuclease when two nucleotides are removed from the 3' ends of the blunt-ended viral DNA made by reverse transcription. This domain also catalyses the DNA strand transfer reaction of the 3' ends of the viral DNA to the 5' ends of the integration site [1].	Domain
C [auth F], H [auth C]	PF01603	Protein phosphatase 2A regulatory B subunit (B56 family) (B56)	Protein phosphatase 2A regulatory B subunit (B56 family)	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth D], B [auth E], F [auth A], G [auth B]	Integrase	binding organic cyclic compound binding nucleic acid binding endonuclease activity RNA endonuclease activity, producing 5'-phosphomonoesters catalytic activity, acting on RNA RNA-DNA hybrid ribonuclease activity catalytic activity, acting on a nucleic acid RNA nuclease activity hydrolase activity nuclease activity hydrolase activity, acting on ester bonds RNA endonuclease activity endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters binding organic cyclic compound binding nucleic acid binding endonuclease activity RNA endonuclease activity, producing 5'-phosphomonoesters catalytic activity, acting on RNA RNA-DNA hybrid ribonuclease activity catalytic activity, acting on a nucleic acid RNA nuclease activity hydrolase activity nuclease activity hydrolase activity, acting on ester bonds RNA endonuclease activity endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters catalytic activity RNA-directed DNA polymerase activity catalytic activity, acting on DNA DNA polymerase activity transferase activity nucleotidyltransferase activity transferase activity, transferring phosphorus-containing groups cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	establishment of integrated proviral latency viral latency viral process establishment of viral latency nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process DNA integration nucleic acid metabolic process viral genome integration into host DNA establishment of integrated proviral latency viral latency viral process establishment of viral latency nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process DNA integration nucleic acid metabolic process viral genome integration into host DNA viral life cycle DNA recombination	-
C [auth F], H [auth C]	PC4 and SFRS1-interacting protein,Serine/threonine-protein phosphatase 2A 56 kDa regulatory subunit gamma isoform	DNA binding double-stranded DNA binding binding organic cyclic compound binding nucleic acid binding supercoiled DNA binding transcription factor binding protein binding DNA-binding transcription factor binding protein-containing complex binding chromatin binding transcription coactivator activity transcription regulator activity transcription coregulator activity DNA binding double-stranded DNA binding binding organic cyclic compound binding nucleic acid binding supercoiled DNA binding transcription factor binding protein binding DNA-binding transcription factor binding protein-containing complex binding chromatin binding transcription coactivator activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity RNA binding enzyme regulator activity protein phosphatase activator activity enzyme activator activity phosphatase activator activity molecular function activator activity phosphatase regulator activity molecular function regulator activity protein phosphatase regulator activity	ribonucleoprotein complex biogenesis cellular biosynthetic process RNA metabolic process mRNA processing protein-RNA complex assembly nucleobase-containing compound metabolic process cellular component organization cellular component biogenesis spliceosomal complex assembly organic substance metabolic process protein-RNA complex organization cellular component assembly organic substance biosynthetic process protein-containing complex assembly ribonucleoprotein complex biogenesis cellular biosynthetic process RNA metabolic process mRNA processing protein-RNA complex assembly nucleobase-containing compound metabolic process cellular component organization cellular component biogenesis spliceosomal complex assembly organic substance metabolic process protein-RNA complex organization cellular component assembly organic substance biosynthetic process protein-containing complex assembly RNA processing cellular component organization or biogenesis mRNA splice site recognition RNA splicing protein-containing complex organization cellular metabolic process primary metabolic process mRNA 5'-splice site recognition gene expression mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process organic cyclic compound metabolic process biosynthetic process RNA splicing, via transesterification reactions mRNA cis splicing, via spliceosome mRNA splicing, via spliceosome metabolic process cellular process RNA splicing, via transesterification reactions with bulged adenosine as nucleophile macromolecule metabolic process response to oxidative stress response to stimulus response to stress response to heat response to abiotic stimulus response to temperature stimulus regulation of cellular process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of transcription by RNA polymerase II regulation of biological process positive regulation of nucleobase-containing compound metabolic process regulation of cellular metabolic process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process regulation of gene expression organic cyclic compound biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process positive regulation of DNA-templated transcription positive regulation of biological process positive regulation of cellular metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of biosynthetic process positive regulation of cellular process regulation of RNA biosynthetic process regulation of biosynthetic process biological regulation regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process regulation of cellular biosynthetic process positive regulation of RNA biosynthetic process positive regulation of cellular biosynthetic process protein-DNA complex organization chromatin organization chromatin remodeling negative regulation of cell population proliferation cell population proliferation regulation of cell population proliferation negative regulation of cellular process negative regulation of biological process cellular response to stimulus regulation of cell cycle phase transition negative regulation of cell cycle cell cycle G1/S phase transition intracellular signal transduction negative regulation of mitotic cell cycle cell communication mitotic DNA integrity checkpoint signaling mitotic DNA damage checkpoint signaling negative regulation of cell cycle phase transition signal transduction cell cycle negative regulation of G1/S transition of mitotic cell cycle mitotic G1/S transition checkpoint signaling regulation of cell cycle process DNA integrity checkpoint signaling regulation of mitotic cell cycle phase transition mitotic cell cycle process regulation of G1/S transition of mitotic cell cycle G1/S transition of mitotic cell cycle DNA damage checkpoint signaling signaling cell cycle phase transition regulation of cell cycle G1/S phase transition DNA damage response, signal transduction by p53 class mediator mitotic cell cycle regulation of mitotic cell cycle cellular response to stress regulation of cell cycle cell cycle process negative regulation of mitotic cell cycle phase transition negative regulation of cell cycle G1/S phase transition signal transduction by p53 class mediator negative regulation of cell cycle process cell cycle checkpoint signaling mitotic cell cycle checkpoint signaling mitotic G1 DNA damage checkpoint signaling DNA damage response DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest signal transduction in response to DNA damage mitotic cell cycle phase transition cell death intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator apoptotic signaling pathway intrinsic apoptotic signaling pathway by p53 class mediator intrinsic apoptotic signaling pathway in response to DNA damage apoptotic process intrinsic apoptotic signaling pathway programmed cell death organonitrogen compound catabolic process organonitrogen compound metabolic process catabolic process proteolysis involved in protein catabolic process proteasomal protein catabolic process protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process macromolecule catabolic process modification-dependent macromolecule catabolic process modification-dependent protein catabolic process proteolysis ubiquitin-dependent protein catabolic process protein metabolic process organic substance catabolic process	protein-containing complex intracellular anatomical structure protein-DNA complex chromatin chromosome cellular anatomical entity heterochromatin intracellular organelle organelle intracellular non-membrane-bounded organelle non-membrane-bounded organelle cytoplasm cytosol membrane-bounded organelle protein-containing complex intracellular anatomical structure protein-DNA complex chromatin chromosome cellular anatomical entity heterochromatin intracellular organelle organelle intracellular non-membrane-bounded organelle non-membrane-bounded organelle cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen organelle lumen nuclear periphery nuclear lumen euchromatin nucleoplasm phosphatase complex catalytic complex protein phosphatase type 2A complex protein serine/threonine phosphatase complex Golgi apparatus endomembrane system chromosome, centromeric region chromosomal region
D [auth I], I [auth K]	DNA (5'-D(APCPTPGPTPGPTPTPTPGPGPCPGPCPTPTPCPTPCPTP*C)-3')	-	-	-
E [auth J], J [auth L]	DNA (5'-D(GPAPGPAPGPAPAPGPCPGPCPCPAPAPAPCPAPCP*A)-3')	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth D], B [auth E], F [auth A], G [auth B]	IPR036397	Ribonuclease H superfamily	Homologous Superfamily
A [auth D], B [auth E], F [auth A], G [auth B]	IPR002156	Ribonuclease H domain	Domain
A [auth D], B [auth E], F [auth A], G [auth B]	IPR003308	Integrase, N-terminal zinc-binding domain	Domain
A [auth D], B [auth E], F [auth A], G [auth B]	IPR001584	Integrase, catalytic core	Domain
A [auth D], B [auth E], F [auth A], G [auth B]	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
A [auth D], B [auth E], F [auth A], G [auth B]	IPR001037	Integrase, C-terminal, retroviral	Domain
A [auth D], B [auth E], F [auth A], G [auth B]	IPR043128	Reverse transcriptase/Diguanylate cyclase domain	Homologous Superfamily
A [auth D], B [auth E], F [auth A], G [auth B]	IPR000477	Reverse transcriptase domain	Domain
A [auth D], B [auth E], F [auth A], G [auth B]	IPR012337	Ribonuclease H-like superfamily	Homologous Superfamily
C [auth F], H [auth C]	IPR021567	Lens epithelium-derived growth factor, integrase-binding domain	Domain
C [auth F], H [auth C]	IPR036218	HIV integrase-binding domain superfamily	Homologous Superfamily
C [auth F], H [auth C]	IPR000313	PWWP domain	Domain
C [auth F], H [auth C]	IPR035441	TFIIS/LEDGF domain superfamily	Homologous Superfamily
C [auth F], H [auth C]	IPR016024	Armadillo-type fold	Homologous Superfamily
C [auth F], H [auth C]	IPR002554	Protein phosphatase 2A, regulatory B subunit, B56	Family
C [auth F], H [auth C]	IPR011989	Armadillo-like helical	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C [auth F], H [auth C]	Pharos: Q13362	acute myeloid leukemia psoriasis astrocytic tumor Down syndrome invasive ductal breast carcinoma lung cancer malignant glioma ovarian cancer Sjogren syndrome Acute Myeloid Leukemia (AML-M2) atypical teratoid rhabdoid tumor glioblastoma large cell medulloblastoma lymphoplasmacytic lymphoma malignant mesothelioma acute myeloid leukemia psoriasis astrocytic tumor Down syndrome invasive ductal breast carcinoma lung cancer malignant glioma ovarian cancer Sjogren syndrome Acute Myeloid Leukemia (AML-M2) atypical teratoid rhabdoid tumor glioblastoma large cell medulloblastoma lymphoplasmacytic lymphoma malignant mesothelioma progressive supranuclear palsy tuberculosis dermatomyositis hepatocellular carcinoma lung adenocarcinoma malignant ependymoma medulloblastoma B-cell chronic lymphocytic leukemia Chromosomal Instability astrocytic tumor dermatomyositis gastric carcinoma lymphoplasmacytic lymphoma oligodendroglioma pancreatic intraductal papillary-mucinous carcinoma Pick disease thyroid gland papillary carcinoma interstitial cystitis malignant ependymoma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm psoriasis tuberculosis familial nonmedullary thyroid carcinoma large cell medulloblastoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.