Research workbench
Crystal structure of glycinamide ribonucleotide transformylase from escherichia COLI at 3.0 ångströms resolution: a target enzyme for chemotherapy
Analyse Crystal structure of glycinamide ribonucleotide transformylase from escherichia… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1GRC
- Type
- protein
- Length
- 384 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glycinamide ribonucleotide transformylase
- EC
- 2.1.2.2
- UniProt
- P08179
- Ligands
- PO4
- Pockets
- 3 · best druggability 0.38
Structure
x-ray diffraction · 2 distinct chains · 34% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Glycinamide ribonucleotide transformylase (EC 2.1.2.2) | protein | 193 | 35% helix, 27% strand | P08179 |
| B | Glycinamide ribonucleotide transformylase (EC 2.1.2.2) | protein | 191 | 34% helix, 24% 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 | 113 | 0.38 | 0.75 | 24 | PO4 |
| 2 | 73 | 0.32 | 0.74 | 18 | PO4 |
| 3 | 62 | 0.25 | 0.72 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 826 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 1GRC · Crystal structure of glycinamide ribonucleotide transformylase from escherichia COLI at… · 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 0.97
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 1GRC · PDBe 1GRC · UniProt P08179
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