Annotations: 6RWM

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
C	d6rwmc1	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)
C	d6rwmc2	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)
D	d6rwmd2	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)
D	d6rwmd1	Alpha and beta proteins (a/b)	Ribonuclease H-like motif	Ribonuclease H-like	Retroviral integrase, catalytic domain	Retroviral integrase, catalytic domain	(Simian immunodeficiency virus ) [TaxId: 11723 ],	SCOPe (2.08)
E [auth F]	d6rwmf1	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 M]	d6rwmm1	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)
F [auth M]	d6rwmm2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Simian immunodeficiency virus ) [TaxId: 11723 ],	SCOPe (2.08)
K	d6rwmk1	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)
K	d6rwmk2	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)
L	d6rwml2	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	d6rwml1	Alpha and beta proteins (a/b)	Ribonuclease H-like motif	Ribonuclease H-like	Retroviral integrase, catalytic domain	Retroviral integrase, catalytic domain	(Simian immunodeficiency virus ) [TaxId: 11723 ],	SCOPe (2.08)
M [auth N]	d6rwmn1	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 E]	d6rwme1	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)
N [auth E]	d6rwme2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(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	IN_DBD_C	e6rwmA3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: IN_DBD_C	ECOD (1.6)
A	Integrase_Zn	e6rwmA1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: Integrase_Zn	ECOD (1.6)
A	rve	e6rwmA2	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: rve	ECOD (1.6)
B	IN_DBD_C	e6rwmB3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: IN_DBD_C	ECOD (1.6)
B	Integrase_Zn	e6rwmB2	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: Integrase_Zn	ECOD (1.6)
B	rve	e6rwmB1	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: rve	ECOD (1.6)
C	Integrase_Zn	e6rwmC2	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: Integrase_Zn	ECOD (1.6)
C	rve	e6rwmC1	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: rve	ECOD (1.6)
D	IN_DBD_C	e6rwmD1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: IN_DBD_C	ECOD (1.6)
D	rve	e6rwmD2	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: rve	ECOD (1.6)
E [auth F]	IN_DBD_C	e6rwmF1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: IN_DBD_C	ECOD (1.6)
F [auth M]	Integrase_Zn	e6rwmM1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: Integrase_Zn	ECOD (1.6)
I	IN_DBD_C	e6rwmI2	A: beta barrels	X: SH3	H: SH3	T: SH3	F: IN_DBD_C	ECOD (1.6)
I	Integrase_Zn	e6rwmI1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: Integrase_Zn	ECOD (1.6)
I	rve	e6rwmI3	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: rve	ECOD (1.6)
J	IN_DBD_C	e6rwmJ1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: IN_DBD_C	ECOD (1.6)
J	Integrase_Zn	e6rwmJ2	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: Integrase_Zn	ECOD (1.6)
J	rve	e6rwmJ3	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: rve	ECOD (1.6)
K	Integrase_Zn	e6rwmK1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: Integrase_Zn	ECOD (1.6)
K	rve	e6rwmK2	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: rve	ECOD (1.6)
L	IN_DBD_C	e6rwmL2	A: beta barrels	X: SH3	H: SH3	T: SH3	F: IN_DBD_C	ECOD (1.6)
L	rve	e6rwmL1	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: rve	ECOD (1.6)
M [auth N]	IN_DBD_C	e6rwmN1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: IN_DBD_C	ECOD (1.6)
N [auth E]	Integrase_Zn	e6rwmE1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: Integrase_Zn	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F [auth M]	1.10.10.200	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Integrase, N-terminal zinc-binding domain	CATH (utative)
N [auth E]	1.10.10.200	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Integrase, N-terminal zinc-binding domain	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E [auth F], A, B, C, D, E [auth F], F [auth M], I, J, K, L, M [auth N], N [auth E]	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, B, C, D, E [auth F], A, B, C, D, E [auth F], F [auth M], I, J, K, L, M [auth N], N [auth E]	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, B, C, D, E [auth F], A, B, C, D, E [auth F], F [auth M], I, J, K, L, M [auth N], N [auth E]	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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E [auth F], A, B, C, D, E [auth F], F [auth M], I, J, K, L, M [auth N], N [auth E]	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 exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters nuclease activity hydrolase activity, acting on ester bonds exoribonuclease H activity exonuclease activity catalytic activity DNA binding binding 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 exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters nuclease activity hydrolase activity, acting on ester bonds exoribonuclease H activity exonuclease activity catalytic activity DNA binding binding organic cyclic compound 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 RNA-DNA hybrid ribonuclease activity RNA endonuclease activity endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters RNA-directed DNA polymerase activity catalytic activity, acting on DNA DNA polymerase activity transferase activity nucleotidyltransferase activity transferase activity, transferring phosphorus-containing groups RNA binding RNA stem-loop binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	biological process involved in interspecies interaction between organisms symbiont entry into host cell viral process symbiont entry into host viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction establishment of integrated proviral latency viral latency establishment of viral latency viral genome integration into host DNA nucleobase-containing compound metabolic process DNA recombination metabolic process biological process involved in interspecies interaction between organisms symbiont entry into host cell viral process symbiont entry into host viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction establishment of integrated proviral latency viral latency establishment of viral latency viral genome integration into host DNA nucleobase-containing compound metabolic process DNA recombination metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process DNA integration proteolysis protein metabolic process	-
G [auth T], O [auth W]	DNA (5'-D(PGPCPTPAPAPGPAPAPAPAPAPTPCPTPCPTPAPCPCPA)-3')	-	-	-
H [auth S], P [auth Q]	DNA (5'-D(APAPCPTPGPGPTPAPGPAPGPAPTPTPTPTPTPCPTPTPAPGP*C)-3')	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

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