Research workbench
Crystal structure of hypc from thermococcus kodakaraensis KOD1
Analyse Crystal structure of hypc from thermococcus kodakaraensis KOD1 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2Z1C
- Type
- protein
- Length
- 216 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hydrogenase EXPRESSION/FORMATION protein hypc
- UniProt
- Q5JII0
- Pockets
- 1 · best druggability 0.68
Structure
x-ray diffraction · 3 distinct chains · 25% helix, 39% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Hydrogenase EXPRESSION/FORMATION protein hypc | protein | 71 | 24% helix, 42% strand | Q5JII0 |
| B | Hydrogenase EXPRESSION/FORMATION protein hypc | protein | 74 | 26% helix, 41% strand | Q5JII0 |
| C | Hydrogenase EXPRESSION/FORMATION protein hypc | protein | 71 | 25% helix, 35% strand | Q5JII0 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 582 | 0.68 | 0.77 | 58 | GOL, PG4 |
Interfaces
3 interfaces between chains.
- B–C · 720 Ų buried · 8 hydrogen bonds · protein-protein
- A–B · 348 Ų buried · 8 hydrogen bonds · protein-protein
- A–C · 75 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 2Z1C · Crystal structure of HypC from Thermococcus kodakaraensis KOD1 · 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 Q5JII0
- Elsewhere: RCSB PDB 2Z1C · PDBe 2Z1C · UniProt Q5JII0
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