4GA6
Crystal structure of AMP phosphorylase C-terminal deletion mutant in complex with substrates
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A | CDC48_N | e4ga6A4 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: double psi | F: CDC48_N | ECOD (1.6) |
A | Glycos_trans_3N | e4ga6A2 | A: alpha arrays | X: Nucleoside phosphorylase/phosphoribosyltransferase-N (From Topology) | H: Nucleoside phosphorylase/phosphoribosyltransferase-N (From Topology) | T: Nucleoside phosphorylase/phosphoribosyltransferase-N | F: Glycos_trans_3N | ECOD (1.6) |
A | PYNP_C | e4ga6A3 | A: a+b complex topology | X: alpha/beta-Hammerhead/Barrel-sandwich hybrid | H: alpha/beta-Hammerhead/Barrel-sandwich hybrid | T: Pyrimidine nucleoside phosphorylase C-terminal domain | F: PYNP_C | ECOD (1.6) |
A | Glycos_transf_3 | e4ga6A1 | A: a/b three-layered sandwiches | X: Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain (From Topology) | H: Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain (From Topology) | T: Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain | F: Glycos_transf_3 | ECOD (1.6) |
B | CDC48_N | e4ga6B4 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: double psi | F: CDC48_N | ECOD (1.6) |
B | Glycos_trans_3N | e4ga6B2 | A: alpha arrays | X: Nucleoside phosphorylase/phosphoribosyltransferase-N (From Topology) | H: Nucleoside phosphorylase/phosphoribosyltransferase-N (From Topology) | T: Nucleoside phosphorylase/phosphoribosyltransferase-N | F: Glycos_trans_3N | ECOD (1.6) |
B | PYNP_C | e4ga6B3 | A: a+b complex topology | X: alpha/beta-Hammerhead/Barrel-sandwich hybrid | H: alpha/beta-Hammerhead/Barrel-sandwich hybrid | T: Pyrimidine nucleoside phosphorylase C-terminal domain | F: PYNP_C | ECOD (1.6) |
B | Glycos_transf_3 | e4ga6B1 | A: a/b three-layered sandwiches | X: Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain (From Topology) | H: Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain (From Topology) | T: Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain | F: Glycos_transf_3 | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
A | 2.40.40.20 | Mainly Beta | Beta Barrel | Barwin-like endoglucanases | CATH (4.3.0) | |
A | 1.20.970.50 | Mainly Alpha | Up-down Bundle | Transferase, Pyrimidine Nucleoside Phosphorylase | Chain A, domain 3 | CATH (4.3.0) |
A | 3.40.1030.10 | Alpha Beta | 3-Layer(aba) Sandwich | Pyrimidine Nucleoside Phosphorylase | Chain A, domain 2 | CATH (4.3.0) |
A | 3.90.1170.30 | Alpha Beta | Alpha-Beta Complex | Aldehyde Oxidoreductase | domain 3 | CATH (4.3.0) |
B | 2.40.40.20 | Mainly Beta | Beta Barrel | Barwin-like endoglucanases | CATH (4.3.0) | |
B | 1.20.970.50 | Mainly Alpha | Up-down Bundle | Transferase, Pyrimidine Nucleoside Phosphorylase | Chain A, domain 3 | CATH (4.3.0) |
B | 3.40.1030.10 | Alpha Beta | 3-Layer(aba) Sandwich | Pyrimidine Nucleoside Phosphorylase | Chain A, domain 2 | CATH (4.3.0) |
B | 3.90.1170.30 | Alpha Beta | Alpha-Beta Complex | Aldehyde Oxidoreductase | domain 3 | CATH (4.3.0) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF00591 | Glycosyl transferase family, a/b domain (Glycos_transf_3) | Glycosyl transferase family, a/b domain | - | Family | |
PF02885 | Glycosyl transferase family, helical bundle domain (Glycos_trans_3N) | Glycosyl transferase family, helical bundle domain | This family includes anthranilate phosphoribosyltransferase (TrpD), thymidine phosphorylase. All these proteins can transfer a phosphorylated ribose substrate. | Domain | |
PF07831 | Pyrimidine nucleoside phosphorylase C-terminal domain (PYNP_C) | Pyrimidine nucleoside phosphorylase C-terminal domain | This domain is found at the C-terminal end of the large alpha/beta domain making up various pyrimidine nucleoside phosphorylases [1,2]. It has slightly different conformations in different members of this family. For example, in pyrimidine nucleoside ... | Domain |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
IPR000053 | Thymidine/pyrimidine-nucleoside phosphorylase | Family | |
IPR017713 | AMP phosphorylase | Family | |
IPR035902 | Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain superfamily | Homologous Superfamily | |
IPR036320 | Glycosyl transferase family 3, N-terminal domain superfamily | Homologous Superfamily | |
IPR036566 | Pyrimidine nucleoside phosphorylase-like, C-terminal domain superfamily | Homologous Superfamily | |
IPR000312 | Glycosyl transferase, family 3 | Domain | |
IPR017872 | Pyrimidine-nucleoside phosphorylase, conserved site | Conserved Site | |
IPR017459 | Glycosyl transferase family 3, N-terminal domain | Domain | |
IPR013466 | Thymidine phosphorylase/AMP phosphorylase | Family | |
IPR013102 | Pyrimidine nucleoside phosphorylase, C-terminal | Domain |