MolNFT v1 · #140885 · protein
Crystal structure of ndm-1 bound to hydrolyzed imipenem representing an ep complex
5YPL: “Crystal structure of ndm-1 bound to hydrolyzed imipenem representing an ep complex”. X-ray diffraction, 4 ligands (HIW, ZN, SO4). MolNFT v1 #140885 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5YPL
- Type
- protein
- Length
- 458 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- A0A0A7Y424
- Ligands
- HIW, ZN, SO4, CL
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | — | protein | 229 | — | A0A0A7Y424 |
Ligands and binding sites
- HIW · (2R,4S)-2-[(1S,2R)-1-carboxy-2-hydroxypropyl]-4-[(2-{[(Z)-iminomethyl]amino}ethyl)sulfanyl]-3,4-dihydro-2H-pyrrole-5-carboxylic acid · ligand · 2 copies · chains A, B
- ZN · Zinc ion · metal · 4 copies · chains A, B
- SO4 · Sulfate ion · ion · chains A
- CL · Chloride ion · ion · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 5YPL · Crystal structure of NDM-1 bound to hydrolyzed imipenem representing an EP complex · 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 A0A0A7Y424
- Elsewhere: RCSB PDB 5YPL · PDBe 5YPL · UniProt A0A0A7Y424
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