2B7F

Crystal structure of human T-cell leukemia virus protease, a novel target for anti-cancer design

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Protein Modification Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Retroviral protease (retropepsin)	8071572	4002288	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Acid proteases	8071573	3001059	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Acid proteases	8071573	3001059	SCOP2B (2022-06-29)
D [auth C]	SCOP2B Superfamily	Acid proteases	8071573	3001059	SCOP2B (2022-06-29)
E [auth D]	SCOP2B Superfamily	Acid proteases	8071573	3001059	SCOP2B (2022-06-29)
G [auth E]	SCOP2B Superfamily	Acid proteases	8071573	3001059	SCOP2B (2022-06-29)
H [auth F]	SCOP2B Superfamily	Acid proteases	8071573	3001059	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	RVP	e2b7fA1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: RVP	ECOD (1.6)
B	RVP	e2b7fB1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: RVP	ECOD (1.6)
D [auth C]	RVP	e2b7fC1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: RVP	ECOD (1.6)
E [auth D]	RVP	e2b7fD1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: RVP	ECOD (1.6)
G [auth E]	RVP	e2b7fE1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: RVP	ECOD (1.6)
H [auth F]	RVP	e2b7fF1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: RVP	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.40.70.10	Mainly Beta	Beta Barrel	Cathepsin D, subunit A	domain 1	CATH (4.3.0)
B	2.40.70.10	Mainly Beta	Beta Barrel	Cathepsin D, subunit A	domain 1	CATH (4.3.0)
D [auth C]	2.40.70.10	Mainly Beta	Beta Barrel	Cathepsin D, subunit A	domain 1	CATH (4.3.0)
E [auth D]	2.40.70.10	Mainly Beta	Beta Barrel	Cathepsin D, subunit A	domain 1	CATH (4.3.0)
G [auth E]	2.40.70.10	Mainly Beta	Beta Barrel	Cathepsin D, subunit A	domain 1	CATH (4.3.0)
H [auth F]	2.40.70.10	Mainly Beta	Beta Barrel	Cathepsin D, subunit A	domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, D [auth C], E [auth D], G [auth E], A, B, D [auth C], E [auth D], G [auth E], H [auth F]	PF00077	Retroviral aspartyl protease (RVP)	Retroviral aspartyl protease	Single domain aspartyl proteases from retroviruses, retrotransposons, and badnaviruses (plant dsDNA viruses). These proteases are generally part of a larger polyprotein; usually pol, more rarely gag. Retroviral proteases appear to be homologous to a ...	Single domain aspartyl proteases from retroviruses, retrotransposons, and badnaviruses (plant dsDNA viruses). These proteases are generally part of a larger polyprotein; usually pol, more rarely gag. Retroviral proteases appear to be homologous to a single domain of the two-domain eukaryotic aspartyl proteases such as pepsins, cathepsins, and renins (Pfam:PF00026).	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, D [auth C], E [auth D], G [auth E], A, B, D [auth C], E [auth D], G [auth E], H [auth F]	HTLV protease	RNA binding 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 DNA binding aspartic-type peptidase activity RNA binding 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 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 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 structural molecule activity 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 viral genome integration into host DNA viral life cycle 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 establishment of integrated proviral latency viral latency viral process establishment of viral latency viral genome integration into host DNA viral life cycle 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 symbiont-mediated perturbation of host cellular process symbiont-mediated suppression of host gene expression biological process involved in interspecies interaction between organisms modulation by symbiont of host process symbiont-mediated perturbation of host gene expression cellular process modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction symbiont entry into host cell symbiont entry into host DNA integration organonitrogen compound metabolic process proteolysis protein metabolic process	viral nucleocapsid viral capsid virion component
C [auth I], F [auth J], I [auth K]	(ACE)APQV(STA)VMHP peptide	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, D [auth C], E [auth D], G [auth E], A, B, D [auth C], E [auth D], G [auth E], H [auth F]	IPR036397	Ribonuclease H superfamily	Homologous Superfamily
A, B, D [auth C], E [auth D], G [auth E], A, B, D [auth C], E [auth D], G [auth E], H [auth F]	IPR045345	Retroviral nucleocapsid Gag protein p24, C-terminal domain	Domain
A, B, D [auth C], E [auth D], G [auth E], A, B, D [auth C], E [auth D], G [auth E], H [auth F]	IPR043128	Reverse transcriptase/Diguanylate cyclase domain	Homologous Superfamily
A, B, D [auth C], E [auth D], G [auth E], A, B, D [auth C], E [auth D], G [auth E], H [auth F]	IPR001995	Peptidase A2A, retrovirus, catalytic	Domain
A, B, D [auth C], E [auth D], G [auth E], A, B, D [auth C], E [auth D], G [auth E], H [auth F]	IPR003139	Delta-retroviral matrix protein	Domain
A, B, D [auth C], E [auth D], G [auth E], A, B, D [auth C], E [auth D], G [auth E], H [auth F]	IPR001878	Zinc finger, CCHC-type	Domain
A, B, D [auth C], E [auth D], G [auth E], A, B, D [auth C], E [auth D], G [auth E], H [auth F]	IPR008919	Retrovirus capsid, N-terminal	Homologous Superfamily
A, B, D [auth C], E [auth D], G [auth E], A, B, D [auth C], E [auth D], G [auth E], H [auth F]	IPR010999	Retroviral matrix protein	Homologous Superfamily
A, B, D [auth C], E [auth D], G [auth E], A, B, D [auth C], E [auth D], G [auth E], H [auth F]	IPR021109	Aspartic peptidase domain superfamily	Homologous Superfamily
A, B, D [auth C], E [auth D], G [auth E], A, B, D [auth C], E [auth D], G [auth E], H [auth F]	IPR001969	Aspartic peptidase, active site	Active Site
A, B, D [auth C], E [auth D], G [auth E], A, B, D [auth C], E [auth D], G [auth E], H [auth F]	IPR036862	Integrase, C-terminal domain superfamily, retroviral	Homologous Superfamily
A, B, D [auth C], E [auth D], G [auth E], A, B, D [auth C], E [auth D], G [auth E], H [auth F]	IPR012337	Ribonuclease H-like superfamily	Homologous Superfamily
A, B, D [auth C], E [auth D], G [auth E], A, B, D [auth C], E [auth D], G [auth E], H [auth F]	IPR018061	Retropepsins	Domain
A, B, D [auth C], E [auth D], G [auth E], A, B, D [auth C], E [auth D], G [auth E], H [auth F]	IPR002156	Ribonuclease H domain	Domain
A, B, D [auth C], E [auth D], G [auth E], A, B, D [auth C], E [auth D], G [auth E], H [auth F]	IPR036875	Zinc finger, CCHC-type superfamily	Homologous Superfamily
A, B, D [auth C], E [auth D], G [auth E], A, B, D [auth C], E [auth D], G [auth E], H [auth F]	IPR003308	Integrase, N-terminal zinc-binding domain	Domain
A, B, D [auth C], E [auth D], G [auth E], A, B, D [auth C], E [auth D], G [auth E], H [auth F]	IPR001584	Integrase, catalytic core	Domain
A, B, D [auth C], E [auth D], G [auth E], A, B, D [auth C], E [auth D], G [auth E], H [auth F]	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
A, B, D [auth C], E [auth D], G [auth E], A, B, D [auth C], E [auth D], G [auth E], H [auth F]	IPR001037	Integrase, C-terminal, retroviral	Domain
A, B, D [auth C], E [auth D], G [auth E], A, B, D [auth C], E [auth D], G [auth E], H [auth F]	IPR000477	Reverse transcriptase domain	Domain
A, B, D [auth C], E [auth D], G [auth E], A, B, D [auth C], E [auth D], G [auth E], H [auth F]	IPR008916	Retrovirus capsid, C-terminal	Homologous Superfamily

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
C [auth I], F [auth J], I [auth K]	ACE	RESID: AA0041 , AA0042 , AA0043 , AA0044 , AA0045 , AA0046 , AA0049 , AA0050 , AA0051 , AA0052 , AA0053 , AA0054 , AA0354 PSI-MOD : N-acetyl-L-alanine MOD:00050 , N-acetyl-L-aspartic acid MOD:00051 , N-acetyl-L-cysteine MOD:00052 , N-acetyl-S-archeol-cysteine MOD:00897 , N-acetyl-L-glutamic acid MOD:00053 , N-acetyl-L-glutamine MOD:00054 , N-acetylglycine MOD:00055 , N-acetyl-L-methionine MOD:00058 , N-acetyl-L-proline MOD:00059 , N-acetyl-L-serine MOD:00060 , N,O-diacetylated L-serine MOD:00648 , N-acetyl-L-threonine MOD:00061 , N-acetyl-L-tyrosine MOD:00062 , N-acetyl-L-valine MOD:00063 , N2-acetyl-L-arginine MOD:00359
C [auth I], F [auth J], I [auth K]	STA	RESID: AA0041 , AA0042 , AA0043 , AA0044 , AA0045 , AA0046 , AA0049 , AA0050 , AA0051 , AA0052 , AA0053 , AA0054 , AA0354