Research workbench
Human gar transformylase in complex with gar substrate and AGF131 inhibitor
Analyse Human gar transformylase in complex with gar substrate and AGF131 inhibitor in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7JG4
- Type
- protein
- Length
- 200 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Trifunctional purine biosynthetic protein adenosine-3
- EC
- 6.3.4.13, 6.3.3.1, 2.1.2.2
- UniProt
- P22102
- Ligands
- GAR, V9V, NA
- Pockets
- 1 · best druggability 0.64
Structure
x-ray diffraction · 1 distinct chain · 36% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Trifunctional purine biosynthetic protein adenosine-3 (EC 6.3.4.13, 6.3.3.1, 2.1.2.2) | protein | 200 | 36% helix, 24% strand | P22102 |
Ligands and binding sites
- GAR · Glycinamide ribonucleotide · ligand · chains A
- V9V · N-(5-{3-[(1S,7R,8R,9S)-4-amino-2-oxo-7lambda~4~-thia-3, 5-diazatetracyclo[4.3.0.0~1,7~.0~7,9~]nona-3,5-dien-8-yl]propyl}thiophene-2-carbonyl)-L-glutamic acid · ligand · chains A
- NA · Sodium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 327 | 0.64 | 0.80 | 41 | GAR, V9V, NA |
Compared structures
- 7JG4 · Human GAR transformylase in complex with GAR substrate and AGF131 inhibitor · the same entry in another collection · chain A against A, TM-score 1.00
- P22102 · AlphaFold monomer V2.0 prediction for trifunctional purine biosynthetic protein… · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P22102
- Elsewhere: RCSB PDB 7JG4 · PDBe 7JG4 · UniProt P22102
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