7O0G

Structure of the foamy viral protease-reverse transcriptase in complex with RNA/DNA hybrid.

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PF03539	e7o0gA2	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: PF03539	ECOD (1.6)
A	F_UNCLASSIFIED	e7o0gA5	A: alpha bundles	X: helical bundle domain in reverse transcriptase-like polymerases (From Topology)	H: helical bundle domain in reverse transcriptase-like polymerases (From Topology)	T: helical bundle domain in reverse transcriptase-like polymerases	F: F_UNCLASSIFIED	ECOD (1.6)
A	PF00078,PF03539	e7o0gA3	A: a+b two layers	X: Alpha-beta plaits	H: Adenylyl and guanylyl cyclase catalytic domain-like	T: Adenylyl and guanylyl cyclase catalytic domain-like	F: PF00078,PF03539	ECOD (1.6)
A	PF00075	e7o0gA1	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: PF00075	ECOD (1.6)
A	PF17917	e7o0gA4	A: mixed a+b and a/b	X: Ribonuclease H-like	H: RNaseH-like domain in reverse transcriptase (From Topology)	T: RNaseH-like domain in reverse transcriptase	F: PF17917	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF03539	Spumavirus aspartic protease (A9) (Spuma_A9PTase)	Spumavirus aspartic protease (A9)	-	Family
A	PF17919	RNase H-like domain found in reverse transcriptase (RT_RNaseH_2)	RNase H-like domain found in reverse transcriptase	-	Domain
A	PF00075	RNase H (RNase_H)	RNase H	RNase H digests the RNA strand of an RNA/DNA hybrid. Important enzyme in retroviral replication cycle, and often found as a domain associated with reverse transcriptases. Structure is a mixed alpha+beta fold with three a/b/a layers.	Domain
A	PF00078	Reverse transcriptase (RNA-dependent DNA polymerase) (RVT_1)	Reverse transcriptase (RNA-dependent DNA polymerase)	A reverse transcriptase gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. Reverse transcriptases occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs ...	A reverse transcriptase gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. Reverse transcriptases occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Pr125Pol	binding organic cyclic compound binding nucleic acid binding catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups aspartic-type peptidase activity peptidase activity catalytic activity, acting on a protein binding organic cyclic compound binding nucleic acid binding catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups aspartic-type peptidase activity peptidase activity catalytic activity, acting on a protein hydrolase activity aspartic-type endopeptidase activity endopeptidase activity endonuclease activity RNA endonuclease activity, producing 5'-phosphomonoesters catalytic activity, acting on RNA RNA-DNA hybrid ribonuclease activity RNA nuclease 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 RNA-directed DNA polymerase activity cation binding ion binding metal ion binding small molecule binding	nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process DNA recombination metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process viral penetration into host nucleus intracellular transport of virus viral process viral life cycle transport of virus nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process DNA recombination metabolic process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process viral penetration into host nucleus intracellular transport of virus viral process viral life cycle transport of virus DNA integration organonitrogen compound metabolic process proteolysis protein metabolic process	intracellular anatomical structure cytoplasm cellular anatomical entity host cellular component host intracellular part host cell cytoplasm host cell part host intracellular region virion component
B [auth E]	RNA (5'-R(UPUPCPUPUPGPUPCPCPAPGPGPAPGPAPGP*G)-3')	-	-	-
C [auth F]	DNA (5'-D(CPCPTPCPTPCPCPTPGPGPAPCPAPAP*G)-3')	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR036397	Ribonuclease H superfamily	Homologous Superfamily
A	IPR041588	Integrase zinc-binding domain	Domain
A	IPR043128	Reverse transcriptase/Diguanylate cyclase domain	Homologous Superfamily
A	IPR001641	Spumavirus aspartic protease A9	Domain
A	IPR040903	Retroviral integrase, C-terminal SH3 domain	Domain
A	IPR021109	Aspartic peptidase domain superfamily	Homologous Superfamily
A	IPR012337	Ribonuclease H-like superfamily	Homologous Superfamily
A	IPR002156	Ribonuclease H domain	Domain
A	IPR001584	Integrase, catalytic core	Domain
A	IPR041577	Reverse transcriptase/retrotransposon-derived protein, RNase H-like domain	Domain
A	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
A	IPR000477	Reverse transcriptase domain	Domain

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.