1EZ1
STRUCTURE OF ESCHERICHIA COLI PURT-ENCODED GLYCINAMIDE RIBONUCLEOTIDE TRANSFORMYLASE COMPLEXED WITH MG, AMPPNP, AND GAR
External Resource: Annotation
Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
A | SCOP2B Superfamily | Glutathione synthetase ATP-binding domain-like | 8040379 | 3000094 | SCOP2B (2022-06-29) |
A | SCOP2B Superfamily | PreATP-grasp domain | 8040377 | 3001680 | SCOP2B (2022-06-29) |
A | SCOP2B Superfamily | Rudiment single hybrid motif | 8040374 | 3001910 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | Rudiment single hybrid motif | 8040374 | 3001910 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | PreATP-grasp domain | 8040377 | 3001680 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | Glutathione synthetase ATP-binding domain-like | 8040379 | 3000094 | 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 | ATP-grasp | e1ez1A1 | A: a+b complex topology | X: Protein kinase/SAICAR synthase/ATP-grasp (From Homology) | H: Protein kinase/SAICAR synthase/ATP-grasp | T: ATP-grasp | F: ATP-grasp | ECOD (1.6) |
A | PurT | e1ez1A2 | A: a+b complex topology | X: alpha/beta-Hammerhead/Barrel-sandwich hybrid | H: alpha/beta-Hammerhead/Barrel-sandwich hybrid | T: CO dehydrogenase molybdoprotein N-domain-like | F: PurT | ECOD (1.6) |
A | 2-Hacid_dh_C_2 | e1ez1A3 | A: a/b three-layered sandwiches | X: Rossmann-like | H: Rossmann-related | T: PreATP-grasp domain | F: 2-Hacid_dh_C_2 | ECOD (1.6) |
B | ATP-grasp | e1ez1B1 | A: a+b complex topology | X: Protein kinase/SAICAR synthase/ATP-grasp (From Homology) | H: Protein kinase/SAICAR synthase/ATP-grasp | T: ATP-grasp | F: ATP-grasp | ECOD (1.6) |
B | PurT | e1ez1B2 | A: a+b complex topology | X: alpha/beta-Hammerhead/Barrel-sandwich hybrid | H: alpha/beta-Hammerhead/Barrel-sandwich hybrid | T: CO dehydrogenase molybdoprotein N-domain-like | F: PurT | ECOD (1.6) |
B | 2-Hacid_dh_C_2 | e1ez1B3 | A: a/b three-layered sandwiches | X: Rossmann-like | H: Rossmann-related | T: PreATP-grasp domain | F: 2-Hacid_dh_C_2 | ECOD (1.6) |
Domain Annotation: CATH CATH Database Homepage
Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
---|---|---|---|---|---|---|
A | 3.40.50.20 | Alpha Beta | 3-Layer(aba) Sandwich | Rossmann fold | CATH (4.3.0) | |
A | 3.30.1490.20 | Alpha Beta | 2-Layer Sandwich | Dna Ligase | domain 1 | CATH (4.3.0) |
A | 3.30.470.20 | Alpha Beta | 2-Layer Sandwich | D-amino Acid Aminotransferase | Chain A, domain 1 | CATH (4.3.0) |
B | 3.40.50.20 | Alpha Beta | 3-Layer(aba) Sandwich | Rossmann fold | CATH (4.3.0) | |
B | 3.30.1490.20 | Alpha Beta | 2-Layer Sandwich | Dna Ligase | domain 1 | CATH (4.3.0) |
B | 3.30.470.20 | Alpha Beta | 2-Layer Sandwich | D-amino Acid Aminotransferase | Chain A, domain 1 | CATH (4.3.0) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF21244 | PurT, C-terminal (PurT_C) | PurT, C-terminal | Formate-dependent phosphoribosylglycinamide formyltransferase (PurT) is involved in de novo purine biosynthesis. PurT belongs to the ATP-grasp superfamily of enzymes and catalyses the transfer of formate to 5-phospho-ribosyl-glycinamide (GAR), produ ... | Domain | |
PF22660 | Ribonucleotide synthetase preATP-grasp domain (RS_preATP-grasp-like) | Ribonucleotide synthetase preATP-grasp domain | This domain precedes the ATP-grasp domain in a number of ribonucleotide synthetases [1-5]. | Domain | |
PF02222 | ATP-grasp domain (ATP-grasp) | ATP-grasp domain | - | Family |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Chains | Accession | Name | Type |
---|---|---|---|
IPR011761 | ATP-grasp fold | Domain | |
IPR054350 | PurT/PurK-like, preATP-grasp domain | Domain | |
IPR013815 | ATP-grasp fold, subdomain 1 | Homologous Superfamily | |
IPR003135 | ATP-grasp fold, ATP-dependent carboxylate-amine ligase-type | Domain | |
IPR016185 | Pre-ATP-grasp domain superfamily | Homologous Superfamily | |
IPR011054 | Rudiment single hybrid motif | Homologous Superfamily | |
IPR048740 | PurT, C-terminal | Domain | |
IPR005862 | Formate-dependent phosphoribosylglycinamide formyltransferase | Family |
Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage
Chains | Enzyme Name | Description | Catalytic Residues |
---|---|---|---|
Formate-dependent phosphoribosylglycinamide formyltransferase M-CSA #665 | The PurT encoded ribonucleotide transformylase is involved in the step of purine biosynthesis that is specific to bacteria, namely the formylation of GAR (glycinamide ribonucleotide). It displays sequence homology of around 20% to PurK, the enzyme which catalyses the equivalent reaction for the adenine biosynthetic pathway, but uses a different intermediate in the reaction, thus has a slightly different mechanism. Consequently, structural differences between the active sites of the two enzymes exist. However, the similarities are also important as both are members of the ATP grasp superfamily of enzymes that includes biotin carboxylase and sugar kinases amongst others, so analysis of the binding of ATP to this enzyme will give clues as to the overall evolutionary relationship between these enzymes. | Defined by 7 residues: SER:A-160GLY:A-162GLU:A-267GLU:A-279ASP:A-286THR:A-287ARG:A-363 | EC: 2.1.2 (PDB Primary Data) |