Research workbench
Crystal structure of amicyanin from paracoccus versutus (thiobacillus versutus)
Analyse Crystal structure of amicyanin from paracoccus versutus (thiobacillus versutus) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1ID2
- Type
- protein
- Length
- 318 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Amicyanin
- UniProt
- P22365
- Ligands
- CU
- Pockets
- 2 · best druggability 0.52
Structure
x-ray diffraction · 1 distinct chain · 3% helix, 44% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Amicyanin | protein | 106 | 3% helix, 44% strand | P22365 |
Ligands and binding sites
- CU · Copper (II) ion · metal · 3 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 124 | 0.52 | 0.81 | 30 | empty |
| 2 | 116 | 0.40 | 0.75 | 22 | empty |
Interfaces
3 interfaces between chains.
- B–C · 389 Ų buried · 4 hydrogen bonds · protein-protein
- A–C · 314 Ų buried · 3 hydrogen bonds · protein-protein
- A–B · 23 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 1ID2 · Crystal structure of amicyanin from paracoccus versutus (thiobacillus versutus) · the same entry in another collection · chain A against A, TM-score 1.00
- P22365 · AlphaFold monomer V2.0 prediction for amicyanin (P22365) · a predicted model of the same protein · chain A 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 P22365
- Elsewhere: RCSB PDB 1ID2 · PDBe 1ID2 · UniProt P22365
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