Research workbench
Anthranilate phosphoribosyltransferase from Thermococcus kodakaraensis
Analyse Anthranilate phosphoribosyltransferase from Thermococcus kodakaraensis in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5NOE
- Type
- protein
- Length
- 1,299 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.91
- Source
- Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
- Molecule
- Anthranilate phosphoribosyltransferase
- EC
- 2.4.2.18
- UniProt
- Q9YGB4
- Pockets
- 12 · best druggability 0.75
Structure
x-ray diffraction · resolution 1.91 · 2 distinct chains · 51% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Anthranilate phosphoribosyltransferase (EC 2.4.2.18) | protein | 325 | 52% helix, 12% strand | Q9YGB4 |
| D | Anthranilate phosphoribosyltransferase (EC 2.4.2.18) | protein | 324 | 51% helix, 12% strand | Q9YGB4 |
Pockets
12 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 285 | 0.75 | 0.88 | 54 | empty |
| 2 | 575 | 0.75 | 0.82 | 86 | empty |
| 3 | 362 | 0.73 | 0.85 | 50 | empty |
| 4 | 476 | 0.65 | 0.77 | 47 | empty |
| 5 | 211 | 0.62 | 0.83 | 43 | empty |
Interfaces
4 interfaces between chains.
- A–C · 753 Ų buried · 1 hydrogen bond · protein-protein
- B–D · 729 Ų buried · 0 hydrogen bonds · protein-protein
- C–D · 422 Ų buried · 5 hydrogen bonds · protein-protein
- A–B · 321 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 5NOE · Anthranilate phosphoribosyltransferase from thermococcus kodakaraensis · the same entry in another collection · chain A against A, TM-score 1.00
- Q9YGB4 · AlphaFold monomer V2.0 prediction for anthranilate phosphoribosyltransferase (Q9YGB4) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 Q9YGB4
- Elsewhere: RCSB PDB 5NOE · PDBe 5NOE · UniProt Q9YGB4
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