MolNFT v1 · #120572 · protein
Structure of pin-domain protein (VAPC4 toxin) from pyrococcus horikoshii determined at 2.2 a resolution
5H4H · Ribonuclease VAPC4: “Structure of pin-domain protein (VAPC4 toxin) from pyrococcus horikoshii determined at 2.2 a resolution”. X-ray diffraction, 1 ligand (CD). MolNFT v1 #120572 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 5H4H
- Type
- protein
- Length
- 289 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ribonuclease VAPC4
- EC
- 3.1.-.-
- UniProt
- O58236
- Ligands
- CD
Structure
x-ray diffraction · 2 distinct chains · 63% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ribonuclease VAPC4 (EC 3.1.-.-) | protein | 144 | 63% helix, 13% strand | O58236 |
| B | Ribonuclease VAPC4 (EC 3.1.-.-) | protein | 145 | 63% helix, 13% strand | O58236 |
Ligands and binding sites
- CD · Cadmium ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
1 interface between chains.
- A–B · 1337 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 5H4H · Structure of PIN-domain protein (VapC4 toxin) from Pyrococcus horikoshii determined at… · the same entry in another collection · chain A against A, TM-score 1.00
- O58236 · AlphaFold monomer V2.0 prediction for ribonuclease VAPC4 (O58236) · a predicted model of the same protein · chain B against A, TM-score 0.99
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 O58236
- Elsewhere: RCSB PDB 5H4H · PDBe 5H4H · UniProt O58236
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