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Crystal structure of wild-type E. COLI asparate transcarbamoylase at pH 8.5 at 2.80 a resolution
Analyse Crystal structure of wild-type E. COLI asparate transcarbamoylase at pH 8.5 at… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3D7S
- Type
- protein
- Length
- 926 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Aspartate carbamoyltransferase catalytic chain; Aspartate carbamoyltransferase regulatory…
- EC
- 2.1.3.2
- UniProt
- P0A786, P0A7F3
- Ligands
- ZN
- Pockets
- 12 · best druggability 0.75
Structure
x-ray diffraction · 2 distinct chains · 30% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Aspartate carbamoyltransferase catalytic chain (EC 2.1.3.2) | protein | 310 | 39% helix, 16% strand | P0A786 |
| B, D | Aspartate carbamoyltransferase regulatory chain (EC 2.1.3.2) | protein | 153 | 10% helix, 12% strand | P0A7F3 |
Ligands and binding sites
- ZN · Zinc ion · metal · 2 copies · chains B, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
12 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 313 | 0.75 | 0.86 | 55 | empty |
| 2 | 269 | 0.73 | 0.87 | 34 | empty |
| 3 | 383 | 0.66 | 0.80 | 52 | empty |
| 4 | 339 | 0.62 | 0.79 | 31 | empty |
| 5 | 216 | 0.54 | 0.78 | 32 | empty |
Interfaces
3 interfaces between chains.
- B–D · 981 Ų buried · 17 hydrogen bonds · protein-protein
- A–B · 632 Ų buried · 15 hydrogen bonds · protein-protein
- C–D · 630 Ų buried · 15 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 disulfide (disulfide).
Compared structures
- 3D7S · Crystal structure of Wild-Type E. Coli Asparate Transcarbamoylase at pH 8.5 at 2.80 A… · the same entry in another collection · chain A against A, TM-score 1.00
- P0A7F3 · AlphaFold monomer V2.0 prediction for aspartate carbamoyltransferase regulatory chain… · a predicted model of the same protein · chain B against A, TM-score 0.91
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 P0A786
- Every structure of UniProt P0A7F3
- Elsewhere: RCSB PDB 3D7S · PDBe 3D7S · UniProt P0A786 · UniProt P0A7F3
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