4OL8 | pdb_00004ol8

Ty3 reverse transcriptase bound to DNA/RNA

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
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	Cytochrom_B562	e4ol8A1	A: alpha bundles	X: YrdC/RibB	H: YrdC/RibB	T: YrdC/RibB	F: Cytochrom_B562	ECOD (develop294)
B	sCache_3_2	e4ol8B3	A: alpha bundles	X: jelly-roll	H: Double-stranded beta-helix	T: Double-stranded beta-helix	F: sCache_3_2	ECOD (develop294)
B	Ribonuclease_3	e4ol8B8	A: alpha bundles	X: Fusion glycoprotein F2	H: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	T: MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase	F: Ribonuclease_3	ECOD (develop294)
G [auth F]	PI3K_C2	e4ol8F4	A: alpha bundles	X: YrdC/RibB	H: SH3	T: SH3	F: PI3K_C2	ECOD (develop294)
H [auth E]	WD40	e4ol8E1	A: alpha bundles	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: WD40	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.70.270	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Reverse transcriptase/Diguanylate cyclase domain	CATH (4.3.0)
A	3.10.10.10	Alpha Beta	Roll	HIV Type 1 Reverse Transcriptase	Chain A, domain 1	CATH (4.3.0)
B	3.30.70.270	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Reverse transcriptase/Diguanylate cyclase domain	CATH (4.3.0)
B	3.10.10.10	Alpha Beta	Roll	HIV Type 1 Reverse Transcriptase	Chain A, domain 1	CATH (4.3.0)
G [auth F]	3.30.70.270	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Reverse transcriptase/Diguanylate cyclase domain	CATH (4.3.0)
G [auth F]	3.10.10.10	Alpha Beta	Roll	HIV Type 1 Reverse Transcriptase	Chain A, domain 1	CATH (4.3.0)
H [auth E]	3.30.70.270	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Reverse transcriptase/Diguanylate cyclase domain	CATH (4.3.0)
H [auth E]	3.10.10.10	Alpha Beta	Roll	HIV Type 1 Reverse Transcriptase	Chain A, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, G [auth F], H [auth E]	PF17919	RNase H-like domain found in reverse transcriptase (RT_RNaseH_2)	RNase H-like domain found in reverse transcriptase		Domain
A, B, G [auth F], H [auth E]	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, B, G [auth F], H [auth E]	Reverse transcriptase/ribonuclease H	RNA binding 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 adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding RNA binding 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 adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding DNA binding 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, hydrolytic mechanism catalytic activity, acting on RNA RNA-DNA hybrid ribonuclease activity RNA nuclease activity hydrolase activity, acting on ester bonds nuclease activity RNA endonuclease activity RNA-directed DNA polymerase activity cation binding transition metal ion binding zinc ion binding metal ion binding	viral gene expression viral process viral translational frameshifting viral translation nucleobase-containing compound metabolic process DNA recombination metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process DNA integration proteolysis viral gene expression viral process viral translational frameshifting viral translation nucleobase-containing compound metabolic process DNA recombination metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process DNA integration proteolysis protein metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle
C, E [auth G]	5'-R(CPUPGPAPGPAPGPAPGPAPGPGPAPAPGPAPUPG)-3'	-	-	-
D, F [auth H]	5'-D(CPAPTPCPTPTPCPCPTPCPTPCPTPCPTPC)-3'	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, G [auth F], H [auth E]	IPR036397	Ribonuclease H superfamily	Homologous Superfamily
A, B, G [auth F], H [auth E]	IPR041588	Integrase zinc-binding domain	Domain
A, B, G [auth F], H [auth E]	IPR043128	Reverse transcriptase/Diguanylate cyclase domain	Homologous Superfamily
A, B, G [auth F], H [auth E]	IPR001878	Zinc finger, CCHC-type	Domain
A, B, G [auth F], H [auth E]	IPR024650	Peptidase A2B, Ty3 transposon peptidase	Domain
A, B, G [auth F], H [auth E]	IPR021109	Aspartic peptidase domain superfamily	Homologous Superfamily
A, B, G [auth F], H [auth E]	IPR050951	Retrovirus_Pol_polyprotein	Unknown
A, B, G [auth F], H [auth E]	IPR012337	Ribonuclease H-like superfamily	Homologous Superfamily
A, B, G [auth F], H [auth E]	IPR036875	Zinc finger, CCHC-type superfamily	Homologous Superfamily
A, B, G [auth F], H [auth E]	IPR001584	Integrase, catalytic core	Domain
A, B, G [auth F], H [auth E]	IPR041577	Reverse transcriptase/retrotransposon-derived protein, RNase H-like domain	Domain
A, B, G [auth F], H [auth E]	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
A, B, G [auth F], H [auth E]	IPR056924	Tf2-1-like, SH3-like domain	Domain
A, B, G [auth F], H [auth E]	IPR000477	Reverse transcriptase domain	Domain
A, B, G [auth F], H [auth E]	IPR045358	Ty3 transposon capsid-like protein	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.