MolNFT v1 · #129631 · protein
Crystal structure of serratia marcescens L-ala D-glu endopeptidase chix
5OPZ: “Crystal structure of serratia marcescens L-ala D-glu endopeptidase chix”. X-ray diffraction, 2 ligands (ZN, CL), 4 pockets (best druggability 0.49). MolNFT v1 #129631 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5OPZ
- Type
- protein
- Length
- 266 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Chix
- UniProt
- A0A0U7UVX7
- Ligands
- ZN, CL
- Pockets
- 4 · best druggability 0.49
Structure
x-ray diffraction · 1 distinct chain · 41% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Chix | protein | 133 | 41% helix, 14% strand | A0A0U7UVX7 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 106 | 0.49 | 0.81 | 19 | empty |
| 2 | 126 | 0.46 | 0.78 | 22 | empty |
| 3 | 140 | 0.39 | 0.74 | 18 | ZN |
| 4 | 71 | 0.37 | 0.78 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 1009 Ų buried · 13 hydrogen bonds · protein-protein
Compared structures
- 5OPZ · Crystal structure of Serratia marcescens L-Ala D-Glu endopeptidase ChiX · the same entry in another collection · chain A 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 A0A0U7UVX7
- Elsewhere: RCSB PDB 5OPZ · PDBe 5OPZ · UniProt A0A0U7UVX7
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