MolNFT v1 · #165615 · protein
Crystal structure of the metallo-beta-lactamase L1 from stenotrophomonas maltophilia in the complex with the hydrolyzed penicillin G
6U0Z · Putative metallo-beta-lactamase L1 (beta-lactamase type II)…: “Crystal structure of the metallo-beta-lactamase L1 from stenotrophomonas maltophilia in the complex with the…”. X-ray diffraction, 5 ligands (PNK, GLC, FRU), 1 pocket…
- PDB
- 6U0Z
- Type
- protein
- Length
- 266 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative metallo-beta-lactamase L1 (beta-lactamase type II) (ec 3.5.2.6) (penicillinase)
- EC
- 3.5.2.6
- UniProt
- B2FTM1
- Ligands
- PNK, GLC, FRU, ZN, SO4
- Pockets
- 1 · best druggability 0.43
Structure
x-ray diffraction · 1 distinct chain · 31% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative metallo-beta-lactamase L1 (beta-lactamase type II) (ec 3.5.2.6) (penicillinase) (EC 3.5.2.6) | protein | 266 | 31% helix, 24% strand | B2FTM1 |
Ligands and binding sites
- PNK · (2R,4S)-2-{(R)-carboxy[(phenylacetyl)amino]methyl}-5,5-dimethyl-1,3-thiazolidine-4-carboxylic acid · ligand · chains A
- GLC · alpha-D-glucopyranose · sugar · 2 copies · chains A
- FRU · beta-D-fructofuranose · sugar · 2 copies · chains A
- ZN · Zinc ion · metal · 3 copies · chains A
- SO4 · Sulfate ion · ion · chains A
- PEG · Di(hydroxyethyl)ether · 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 | 123 | 0.43 | 0.76 | 26 | PNK, ZN |
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 6U0Z · Crystal Structure of the metallo-beta-lactamase L1 from Stenotrophomonas maltophilia in… · 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 B2FTM1
- Elsewhere: RCSB PDB 6U0Z · PDBe 6U0Z · UniProt B2FTM1
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