MolNFT v2 · #141628 · protein
The crystal structure of Macrobrachium rosenbergii nodavirus P-domain with Cd ion
5YKX: “The crystal structure of Macrobrachium rosenbergii nodavirus P-domain with Cd ion”. X-ray diffraction at 2, 2 ligands (CD, SO4). MolNFT v2 #141628 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5YKX
- Type
- protein
- Length
- 241 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2
- Source
- Macrobrachium rosenbergii nodavirus
- UniProt
- Q6XNL3
- Ligands
- CD, SO4
Structure
x-ray diffraction · resolution 2 · 2 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 118 | — | Q6XNL3 |
| B | — | protein | 123 | — | Q6XNL3 |
Ligands and binding sites
- CD · Cadmium ion · metal · 3 copies · chains A, B
- SO4 · Sulfate ion · ion · chains B
- EPE · 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 5YKX · The crystal structure of macrobrachium rosenbergii nodavirus P-domain with CD ion · 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 Q6XNL3
- Elsewhere: RCSB PDB 5YKX · PDBe 5YKX · UniProt Q6XNL3
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