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Crystal structure of N-carbamyl-D-amino acid amidohydrolase with a novel catalytic framework common to amidohydrolases
Analyse Crystal structure of N-carbamyl-D-amino acid amidohydrolase with a novel… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1ERZ
- Type
- protein
- Length
- 606 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- N-carbamyl-D-amino acid amidohydrolase
- EC
- 3.5.1.77
- UniProt
- P60327
- Pockets
- 4 · best druggability 0.79
Structure
x-ray diffraction · 1 distinct chain · 32% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | N-carbamyl-D-amino acid amidohydrolase (EC 3.5.1.77) | protein | 303 | 32% helix, 28% strand | P60327 |
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 242 | 0.79 | 0.92 | 39 | empty |
| 2 | 280 | 0.78 | 0.90 | 43 | empty |
| 3 | 52 | 0.37 | 0.80 | 14 | empty |
| 4 | 99 | 0.34 | 0.74 | 22 | empty |
Interfaces
1 interface between chains.
- A–B · 2525 Ų buried · 24 hydrogen bonds · protein-protein
Compared structures
- 1ERZ · Crystal structure of N-carbamyl-D-amino acid amidohydrolase with a novel catalytic… · the same entry in another collection · chain A against A, TM-score 1.00
- P60327 · AlphaFold monomer V2.0 prediction for N-carbamoyl-D-amino acid hydrolase (P60327) · a predicted model of the same protein · chain B against A, TM-score 1.00
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 P60327
- Elsewhere: RCSB PDB 1ERZ · PDBe 1ERZ · UniProt P60327
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