Annotations: 6RWO

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D [auth E]	d6rwoe1	All alpha proteins	DNA/RNA-binding 3-helical bundle	Retroviral integrase, N-terminal Zn binding domain	HIV/SIV integrase, N-terminal Zn binding domain	Simian immunodeficiency virus	(Simian immunodeficiency virus ) [TaxId: 11723 ],	SCOPe (2.08)
D [auth E]	d6rwoe2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Simian immunodeficiency virus ) [TaxId: 11723 ],	SCOPe (2.08)
O [auth C]	d6rwoc1	All alpha proteins	DNA/RNA-binding 3-helical bundle	Retroviral integrase, N-terminal Zn binding domain	HIV/SIV integrase, N-terminal Zn binding domain	Simian immunodeficiency virus	(Simian immunodeficiency virus ) [TaxId: 11723 ],	SCOPe (2.08)
O [auth C]	d6rwoc2	Alpha and beta proteins (a/b)	Ribonuclease H-like motif	Ribonuclease H-like	automated matches	automated matches	(Simian immunodeficiency virus ) [TaxId: 11723 ],	SCOPe (2.08)
N [auth D]	d6rwod2	All beta proteins	SH3-like barrel	DNA-binding domain of retroviral integrase	DNA-binding domain of retroviral integrase	DNA-binding domain of retroviral integrase	(Simian immunodeficiency virus ) [TaxId: 11723 ],	SCOPe (2.08)
N [auth D]	d6rwod1	Alpha and beta proteins (a/b)	Ribonuclease H-like motif	Ribonuclease H-like	automated matches	automated matches	(Simian immunodeficiency virus ) [TaxId: 11723 ],	SCOPe (2.08)
M [auth F]	d6rwof1	All beta proteins	SH3-like barrel	DNA-binding domain of retroviral integrase	DNA-binding domain of retroviral integrase	DNA-binding domain of retroviral integrase	(Simian immunodeficiency virus ) [TaxId: 11723 ],	SCOPe (2.08)
L [auth M]	d6rwom1	All alpha proteins	DNA/RNA-binding 3-helical bundle	Retroviral integrase, N-terminal Zn binding domain	HIV/SIV integrase, N-terminal Zn binding domain	Simian immunodeficiency virus	(Simian immunodeficiency virus ) [TaxId: 11723 ],	SCOPe (2.08)
L [auth M]	d6rwom2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Simian immunodeficiency virus ) [TaxId: 11723 ],	SCOPe (2.08)
G [auth K]	d6rwok1	All alpha proteins	DNA/RNA-binding 3-helical bundle	Retroviral integrase, N-terminal Zn binding domain	HIV/SIV integrase, N-terminal Zn binding domain	Simian immunodeficiency virus	(Simian immunodeficiency virus ) [TaxId: 11723 ],	SCOPe (2.08)
G [auth K]	d6rwok2	Alpha and beta proteins (a/b)	Ribonuclease H-like motif	Ribonuclease H-like	automated matches	automated matches	(Simian immunodeficiency virus ) [TaxId: 11723 ],	SCOPe (2.08)
F [auth L]	d6rwol2	All beta proteins	SH3-like barrel	DNA-binding domain of retroviral integrase	DNA-binding domain of retroviral integrase	DNA-binding domain of retroviral integrase	(Simian immunodeficiency virus ) [TaxId: 11723 ],	SCOPe (2.08)
F [auth L]	d6rwol1	Alpha and beta proteins (a/b)	Ribonuclease H-like motif	Ribonuclease H-like	automated matches	automated matches	(Simian immunodeficiency virus ) [TaxId: 11723 ],	SCOPe (2.08)
E [auth N]	d6rwon1	All beta proteins	SH3-like barrel	DNA-binding domain of retroviral integrase	DNA-binding domain of retroviral integrase	DNA-binding domain of retroviral integrase	(Simian immunodeficiency virus ) [TaxId: 11723 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Cytochrome_C554	e6rwoA1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cytochrome_C554	ECOD (v294.1)
D [auth E]	Cytochrome_C554	e6rwoE1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cytochrome_C554	ECOD (v294.1)
I	Cytochrome_C554	e6rwoI1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cytochrome_C554	ECOD (v294.1)
O [auth C]	Cytochrome_C554	e6rwoC1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cytochrome_C554	ECOD (v294.1)
P [auth B]	Cytochrome_C554	e6rwoB1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cytochrome_C554	ECOD (v294.1)
N [auth D]	Cytochrome_C554	e6rwoD1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cytochrome_C554	ECOD (v294.1)
M [auth F]	Cytochrome_C554	e6rwoF1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cytochrome_C554	ECOD (v294.1)
L [auth M]	Cytochrome_C554	e6rwoM1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cytochrome_C554	ECOD (v294.1)
H [auth J]	Cytochrome_C554	e6rwoJ1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cytochrome_C554	ECOD (v294.1)
G [auth K]	Cytochrome_C554	e6rwoK1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cytochrome_C554	ECOD (v294.1)
F [auth L]	Cytochrome_C554	e6rwoL1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cytochrome_C554	ECOD (v294.1)
E [auth N]	Cytochrome_C554	e6rwoN1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Cytochrome_C554	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.420.10	Alpha Beta	2-Layer Sandwich	Nucleotidyltransferase	domain 5	CATH (utative)
A	2.30.30.10	Mainly Beta	Roll	SH3 type barrels.	Integrase, C-terminal domain superfamily, retroviral	CATH (utative)
D [auth E]	1.10.10.200	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Integrase, N-terminal zinc-binding domain	CATH (utative)
I	3.30.420.10	Alpha Beta	2-Layer Sandwich	Nucleotidyltransferase	domain 5	CATH (utative)
I	2.30.30.10	Mainly Beta	Roll	SH3 type barrels.	Integrase, C-terminal domain superfamily, retroviral	CATH (utative)
O [auth C]	3.30.420.10	Alpha Beta	2-Layer Sandwich	Nucleotidyltransferase	domain 5	CATH (utative)
P [auth B]	3.30.420.10	Alpha Beta	2-Layer Sandwich	Nucleotidyltransferase	domain 5	CATH (utative)
L [auth M]	1.10.10.200	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Integrase, N-terminal zinc-binding domain	CATH (utative)
H [auth J]	3.30.420.10	Alpha Beta	2-Layer Sandwich	Nucleotidyltransferase	domain 5	CATH (utative)
G [auth K]	3.30.420.10	Alpha Beta	2-Layer Sandwich	Nucleotidyltransferase	domain 5	CATH (utative)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, D [auth E], E [auth N], F [auth L], G [auth K], A, D [auth E], E [auth N], F [auth L], G [auth K], H [auth J], I, L [auth M], M [auth F], N [auth D], O [auth C], P [auth B]	Pol protein	catalytic activity, acting on RNA RNA exonuclease activity, producing 5'-phosphomonoesters catalytic activity, acting on a nucleic acid RNA exonuclease activity RNA nuclease activity hydrolase activity hydrolase activity, acting on ester bonds nuclease activity exoribonuclease H activity exonuclease activity catalytic activity catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on RNA RNA exonuclease activity, producing 5'-phosphomonoesters catalytic activity, acting on a nucleic acid RNA exonuclease activity RNA nuclease activity hydrolase activity hydrolase activity, acting on ester bonds nuclease activity exoribonuclease H activity exonuclease activity catalytic activity catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity transferase activity nucleotidyltransferase activity transferase activity, transferring phosphorus-containing groups DNA binding binding nucleic acid binding aspartic-type peptidase activity peptidase activity catalytic activity, acting on a protein aspartic-type endopeptidase activity endopeptidase activity endonuclease activity RNA endonuclease activity producing 5'-phosphomonoesters, hydrolytic mechanism RNA-DNA hybrid ribonuclease activity RNA endonuclease activity RNA-directed DNA polymerase activity RNA binding RNA stem-loop binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	symbiont-mediated perturbation of host cellular process symbiont-mediated suppression of host gene expression biological process involved in interspecies interaction between organisms symbiont-mediated perturbation of host process symbiont-mediated perturbation of host gene expression modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction symbiont entry into host cell viral process symbiont entry into host viral life cycle establishment of integrated proviral latency viral latency symbiont-mediated perturbation of host cellular process symbiont-mediated suppression of host gene expression biological process involved in interspecies interaction between organisms symbiont-mediated perturbation of host process symbiont-mediated perturbation of host gene expression modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction symbiont entry into host cell viral process symbiont entry into host viral life cycle establishment of integrated proviral latency viral latency establishment of viral latency viral gene expression viral translational frameshifting viral translation viral genome integration into host DNA nucleobase-containing compound metabolic process DNA recombination metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process viral penetration into host nucleus intracellular transport of virus transport of virus DNA integration proteolysis protein metabolic process	host cell plasma membrane host cellular component cellular anatomical structure host cell part host cell membrane other organism part host intracellular part host cell cytoplasm host intracellular region host cell host intracellular membrane-bounded organelle host cell nucleus host intracellular organelle viral nucleocapsid host cell plasma membrane host cellular component cellular anatomical structure host cell part host cell membrane other organism part host intracellular part host cell cytoplasm host intracellular region host cell host intracellular membrane-bounded organelle host cell nucleus host intracellular organelle viral nucleocapsid viral capsid virion component
C [auth W], K [auth T]	DNA (5'-D(PGPCPTPAPAPGPAPAPAPAPAPTPCPTPCPTPAPCPCPA)-3')	-	-	-
B [auth Q], J [auth S]	DNA (5'-D(APAPCPTPGPGPTPAPGPAPGPAPTPTPTPTPTPCPTPTPAPGP*C)-3')	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, D [auth E], E [auth N], F [auth L], G [auth K], A, D [auth E], E [auth N], F [auth L], G [auth K], H [auth J], I, L [auth M], M [auth F], N [auth D], O [auth C], P [auth B]	IPR036397	Ribonuclease H superfamily	Homologous Superfamily
A, D [auth E], E [auth N], F [auth L], G [auth K], A, D [auth E], E [auth N], F [auth L], G [auth K], H [auth J], I, L [auth M], M [auth F], N [auth D], O [auth C], P [auth B]	IPR043128	Reverse transcriptase/Diguanylate cyclase domain	Homologous Superfamily
A, D [auth E], E [auth N], F [auth L], G [auth K], A, D [auth E], E [auth N], F [auth L], G [auth K], H [auth J], I, L [auth M], M [auth F], N [auth D], O [auth C], P [auth B]	IPR001995	Peptidase A2A, retrovirus, catalytic	Domain
A, D [auth E], E [auth N], F [auth L], G [auth K], A, D [auth E], E [auth N], F [auth L], G [auth K], H [auth J], I, L [auth M], M [auth F], N [auth D], O [auth C], P [auth B]	IPR021109	Aspartic peptidase domain superfamily	Homologous Superfamily
A, D [auth E], E [auth N], F [auth L], G [auth K], A, D [auth E], E [auth N], F [auth L], G [auth K], H [auth J], I, L [auth M], M [auth F], N [auth D], O [auth C], P [auth B]	IPR001969	Aspartic peptidase, active site	Active Site
A, D [auth E], E [auth N], F [auth L], G [auth K], A, D [auth E], E [auth N], F [auth L], G [auth K], H [auth J], I, L [auth M], M [auth F], N [auth D], O [auth C], P [auth B]	IPR036862	Integrase, C-terminal domain superfamily, retroviral	Homologous Superfamily
A, D [auth E], E [auth N], F [auth L], G [auth K], A, D [auth E], E [auth N], F [auth L], G [auth K], H [auth J], I, L [auth M], M [auth F], N [auth D], O [auth C], P [auth B]	IPR012337	Ribonuclease H-like superfamily	Homologous Superfamily
A, D [auth E], E [auth N], F [auth L], G [auth K], A, D [auth E], E [auth N], F [auth L], G [auth K], H [auth J], I, L [auth M], M [auth F], N [auth D], O [auth C], P [auth B]	IPR018061	Retropepsins	Domain
A, D [auth E], E [auth N], F [auth L], G [auth K], A, D [auth E], E [auth N], F [auth L], G [auth K], H [auth J], I, L [auth M], M [auth F], N [auth D], O [auth C], P [auth B]	IPR017856	Integrase-like, N-terminal	Homologous Superfamily
A, D [auth E], E [auth N], F [auth L], G [auth K], A, D [auth E], E [auth N], F [auth L], G [auth K], H [auth J], I, L [auth M], M [auth F], N [auth D], O [auth C], P [auth B]	IPR010661	Reverse transcriptase thumb	Domain
A, D [auth E], E [auth N], F [auth L], G [auth K], A, D [auth E], E [auth N], F [auth L], G [auth K], H [auth J], I, L [auth M], M [auth F], N [auth D], O [auth C], P [auth B]	IPR002156	Ribonuclease H domain	Domain
A, D [auth E], E [auth N], F [auth L], G [auth K], A, D [auth E], E [auth N], F [auth L], G [auth K], H [auth J], I, L [auth M], M [auth F], N [auth D], O [auth C], P [auth B]	IPR003308	Integrase, N-terminal zinc-binding domain	Domain
A, D [auth E], E [auth N], F [auth L], G [auth K], A, D [auth E], E [auth N], F [auth L], G [auth K], H [auth J], I, L [auth M], M [auth F], N [auth D], O [auth C], P [auth B]	IPR001584	Integrase, catalytic core	Domain
A, D [auth E], E [auth N], F [auth L], G [auth K], A, D [auth E], E [auth N], F [auth L], G [auth K], H [auth J], I, L [auth M], M [auth F], N [auth D], O [auth C], P [auth B]	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
A, D [auth E], E [auth N], F [auth L], G [auth K], A, D [auth E], E [auth N], F [auth L], G [auth K], H [auth J], I, L [auth M], M [auth F], N [auth D], O [auth C], P [auth B]	IPR001037	Integrase, C-terminal, retroviral	Domain
A, D [auth E], E [auth N], F [auth L], G [auth K], A, D [auth E], E [auth N], F [auth L], G [auth K], H [auth J], I, L [auth M], M [auth F], N [auth D], O [auth C], P [auth B]	IPR000477	Reverse transcriptase domain	Domain
A, D [auth E], E [auth N], F [auth L], G [auth K], A, D [auth E], E [auth N], F [auth L], G [auth K], H [auth J], I, L [auth M], M [auth F], N [auth D], O [auth C], P [auth B]	IPR010659	Reverse transcriptase connection	Domain

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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.