MolNFT v1 · #2975 · protein
Structures of apo and complexed escherichia COLI glycinamide ribonucleotide transformylase
1CDD · Phosphoribosyl-glycinamide formyltransferase: “Structures of apo and complexed escherichia COLI glycinamide ribonucleotide transformylase”. X-ray diffraction, 1 ligand (PO4), 3 pockets (best druggability 0.42). MolNFT v1 #2975 on…
- PDB
- 1CDD
- Type
- protein
- Length
- 378 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Phosphoribosyl-glycinamide formyltransferase
- EC
- 2.1.2.2
- UniProt
- P08179
- Ligands
- PO4
- Pockets
- 3 · best druggability 0.42
Structure
x-ray diffraction · 1 distinct chain · 33% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Phosphoribosyl-glycinamide formyltransferase (EC 2.1.2.2) | protein | 189 | 33% helix, 21% strand | P08179 |
Ligands and binding sites
- PO4 · Phosphate ion · ion · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 126 | 0.42 | 0.76 | 31 | PO4 |
| 2 | 124 | 0.37 | 0.73 | 24 | PO4 |
| 3 | 64 | 0.30 | 0.74 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 861 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 1CDD · Structures of apo and complexed escherichia COLI glycinamide ribonucleotide transformylase · the same entry in another collection · chain A against A, TM-score 1.00
- P08179 · AlphaFold monomer V2.0 prediction for phosphoribosylglycinamide formyltransferase (P08179) · a predicted model of the same protein · chain A against A, TM-score 0.96
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P08179
- Elsewhere: RCSB PDB 1CDD · PDBe 1CDD · UniProt P08179
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