MolNFT v1 · #84655 · protein
Structure of new delhi metallo-beta-lactamase 1 (ndm-1)
3ZR9 · Beta-lactamase ndm-1: “Structure of new delhi metallo-beta-lactamase 1 (ndm-1)”. X-ray diffraction, 4 ligands (NI, ZN, CO), 1 pocket (best druggability 0.40). MolNFT v1 #84655 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 3ZR9
- Type
- protein
- Length
- 231 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Beta-lactamase ndm-1
- EC
- 3.5.2.6
- UniProt
- C7C422
- Ligands
- NI, ZN, CO, CD
- Pockets
- 1 · best druggability 0.40
Structure
x-ray diffraction · 1 distinct chain · 24% helix, 32% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Beta-lactamase ndm-1 (EC 3.5.2.6) | protein | 231 | 24% helix, 32% strand | C7C422 |
Ligands and binding sites
- NI · Nickel (II) ion · metal · 4 copies · chains A
- ZN · Zinc ion · metal · chains A
- CO · Cobalt (II) ion · metal · chains A
- CD · Cadmium ion · metal · 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 | 140 | 0.40 | 0.74 | 23 | CD |
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 3ZR9 · PDBe 3ZR9 · UniProt C7C422
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