1VDM | pdb_00001vdm

Crystal structure of purine phosphoribosyltransferase from Pyrococcus horikoshii Ot3

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1vdma1	Alpha and beta proteins (a/b)	PRTase-like	PRTase-like	Phosphoribosyltransferases (PRTases)	Pprobable purine phosphoribosyltransferase PH0095	(Pyrococcus horikoshii ) [TaxId: 53953 ],	SCOPe (2.08)
B	d1vdmb_	Alpha and beta proteins (a/b)	PRTase-like	PRTase-like	Phosphoribosyltransferases (PRTases)	Pprobable purine phosphoribosyltransferase PH0095	(Pyrococcus horikoshii ) [TaxId: 53953 ],	SCOPe (2.08)
C	d1vdmc_	Alpha and beta proteins (a/b)	PRTase-like	PRTase-like	Phosphoribosyltransferases (PRTases)	Pprobable purine phosphoribosyltransferase PH0095	(Pyrococcus horikoshii ) [TaxId: 53953 ],	SCOPe (2.08)
D	d1vdmd_	Alpha and beta proteins (a/b)	PRTase-like	PRTase-like	Phosphoribosyltransferases (PRTases)	Pprobable purine phosphoribosyltransferase PH0095	(Pyrococcus horikoshii ) [TaxId: 53953 ],	SCOPe (2.08)
F	d1vdmf_	Alpha and beta proteins (a/b)	PRTase-like	PRTase-like	Phosphoribosyltransferases (PRTases)	Pprobable purine phosphoribosyltransferase PH0095	(Pyrococcus horikoshii ) [TaxId: 53953 ],	SCOPe (2.08)
G	d1vdmg_	Alpha and beta proteins (a/b)	PRTase-like	PRTase-like	Phosphoribosyltransferases (PRTases)	Pprobable purine phosphoribosyltransferase PH0095	(Pyrococcus horikoshii ) [TaxId: 53953 ],	SCOPe (2.08)
H	d1vdmh_	Alpha and beta proteins (a/b)	PRTase-like	PRTase-like	Phosphoribosyltransferases (PRTases)	Pprobable purine phosphoribosyltransferase PH0095	(Pyrococcus horikoshii ) [TaxId: 53953 ],	SCOPe (2.08)
I	d1vdmi_	Alpha and beta proteins (a/b)	PRTase-like	PRTase-like	Phosphoribosyltransferases (PRTases)	Pprobable purine phosphoribosyltransferase PH0095	(Pyrococcus horikoshii ) [TaxId: 53953 ],	SCOPe (2.08)
J	d1vdmj_	Alpha and beta proteins (a/b)	PRTase-like	PRTase-like	Phosphoribosyltransferases (PRTases)	Pprobable purine phosphoribosyltransferase PH0095	(Pyrococcus horikoshii ) [TaxId: 53953 ],	SCOPe (2.08)
K	d1vdmk_	Alpha and beta proteins (a/b)	PRTase-like	PRTase-like	Phosphoribosyltransferases (PRTases)	Pprobable purine phosphoribosyltransferase PH0095	(Pyrococcus horikoshii ) [TaxId: 53953 ],	SCOPe (2.08)
L	d1vdml_	Alpha and beta proteins (a/b)	PRTase-like	PRTase-like	Phosphoribosyltransferases (PRTases)	Pprobable purine phosphoribosyltransferase PH0095	(Pyrococcus horikoshii ) [TaxId: 53953 ],	SCOPe (2.08)
E	d1vdme_	Alpha and beta proteins (a/b)	PRTase-like	PRTase-like	Phosphoribosyltransferases (PRTases)	Pprobable purine phosphoribosyltransferase PH0095	(Pyrococcus horikoshii ) [TaxId: 53953 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Phosphoribosyltransferases (PRTases)	8020791	4000253	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	PRTase-like	8033171	3000060	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	PRTase-like	8033171	3000060	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	PRTase-like	8033171	3000060	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	PRTase-like	8033171	3000060	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	PRTase-like	8033171	3000060	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	PRTase-like	8033171	3000060	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	PRTase-like	8033171	3000060	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	PRTase-like	8033171	3000060	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	PRTase-like	8033171	3000060	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	PRTase-like	8033171	3000060	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	PRTase-like	8033171	3000060	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	PRTase-like	8033171	3000060	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		e1vdmA1	A: Flavodoxin-like	X: Class I glutamine amidotransferase-like	H: PRTase-like	T: Pribosyltran	F:	ECOD (20:10:01)
B		e1vdmB1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: E1_dh	F:	ECOD (20:10:01)
C		e1vdmC1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: E1_dh	F:	ECOD (20:10:01)
D		e1vdmD1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: E1_dh	F:	ECOD (20:10:01)
F		e1vdmF1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: E1_dh	F:	ECOD (20:10:01)
G		e1vdmG1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: E1_dh	F:	ECOD (20:10:01)
H		e1vdmH1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: E1_dh	F:	ECOD (20:10:01)
I		e1vdmI1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: E1_dh	F:	ECOD (20:10:01)
J		e1vdmJ1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: E1_dh	F:	ECOD (20:10:01)
K		e1vdmK1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: E1_dh	F:	ECOD (20:10:01)
L		e1vdmL1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: E1_dh	F:	ECOD (20:10:01)
E		e1vdmE1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: E1_dh	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.2020	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
B	3.40.50.2020	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
C	3.40.50.2020	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
D	3.40.50.2020	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
F	3.40.50.2020	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
G	3.40.50.2020	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
H	3.40.50.2020	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
I	3.40.50.2020	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
J	3.40.50.2020	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
K	3.40.50.2020	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
L	3.40.50.2020	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
E	3.40.50.2020	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	purine phosphoribosyltransferase	glycosyltransferase activity transferase activity catalytic activity	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR000836	Phosphoribosyltransferase domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR029057	Phosphoribosyltransferase-like	Homologous Superfamily

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.