MolNFT v1 · #141265 · protein
Crystal structures of the trimeric N-terminal domain of ciliate euplotes octocarinatus centrin
5Z1Q · Centrin protein: “Crystal structures of the trimeric N-terminal domain of ciliate euplotes octocarinatus centrin”. X-ray diffraction, 2 ligands (CA, CL), 1 pocket (best druggability 0.77). MolNFT v1 #141265 on GenesisL1: 3D…
- PDB
- 5Z1Q
- Type
- protein
- Length
- 224 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Centrin protein
- UniProt
- Q9XZV2
- Ligands
- CA, CL
- Pockets
- 1 · best druggability 0.77
Structure
x-ray diffraction · 2 distinct chains · 62% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Centrin protein | protein | 75 | 61% helix, 5% strand | Q9XZV2 |
| B | Centrin protein | protein | 74 | 62% helix, 5% strand | Q9XZV2 |
Ligands and binding sites
- CA · Calcium ion · metal · 5 copies · chains A, B, C
- CL · Chloride ion · ion · 2 copies · chains A, B
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 | 284 | 0.77 | 0.89 | 26 | empty |
Interfaces
3 interfaces between chains.
- A–B · 572 Ų buried · 10 hydrogen bonds · protein-protein
- A–C · 557 Ų buried · 5 hydrogen bonds · protein-protein
- B–C · 542 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 9 modified (engineered).
Compared structures
- 5Z1Q · Crystal structures of the trimeric N-terminal domain of Ciliate Euplotes octocarinatus… · 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 Q9XZV2
- Elsewhere: RCSB PDB 5Z1Q · PDBe 5Z1Q · UniProt Q9XZV2
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