MolNFT v1 · #139755 · protein
Native structure of ndm-1 crystallized at PH5.5
5XP6 · Metallo-beta-lactamase type 2: “Native structure of ndm-1 crystallized at PH5.5”. X-ray diffraction, 2 ligands (ZN, OH), 1 pocket (best druggability 0.37). MolNFT v1 #139755 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 5XP6
- Type
- protein
- Length
- 229 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Metallo-beta-lactamase type 2
- EC
- 3.5.2.6
- UniProt
- C7C422
- Ligands
- ZN, OH
- Pockets
- 1 · best druggability 0.37
Structure
x-ray diffraction · 1 distinct chain · 25% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Metallo-beta-lactamase type 2 (EC 3.5.2.6) | protein | 229 | 25% helix, 30% strand | C7C422 |
Ligands and binding sites
- ZN · Zinc ion · metal · 2 copies · chains A
- OH · Hydroxide ion · ion · chains A
- EDO · 1,2-ethanediol · additive · 5 copies · chains A
- SIN · Succinic acid · additive · 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, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 99 | 0.37 | 0.75 | 18 | OH, EDO, SIN |
Compared structures
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 C7C422
- Elsewhere: RCSB PDB 5XP6 · PDBe 5XP6 · UniProt C7C422
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