Research workbench
Crystal structure of the danio rerio centrosomal protein CEP135 coiled-coil fragment 64-190
Analyse Crystal structure of the danio rerio centrosomal protein CEP135 coiled-coil… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7BJI
- Type
- protein
- Length
- 344 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Centrosomal protein of 135 kda
- UniProt
- Q5RG45
- Pockets
- 1 · best druggability 0.44
Structure
x-ray diffraction · 4 distinct chains · 97% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Centrosomal protein of 135 kda | protein | 82 | 98% helix, 0% strand | Q5RG45 |
| B | Centrosomal protein of 135 kda | protein | 92 | 98% helix, 0% strand | Q5RG45 |
| C | Centrosomal protein of 135 kda | protein | 80 | 98% helix, 0% strand | Q5RG45 |
| D | Centrosomal protein of 135 kda | protein | 90 | 96% helix, 0% strand | Q5RG45 |
Ligands and binding sites
- EDO · 1,2-ethanediol · additive · 6 copies · chains A, B, C, D
- ACT · Acetate ion · additive · 2 copies · chains A, C, D, B
- PGE · Triethylene glycol · additive · chains A, C
- GOL · Glycerol · additive · chains A, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 57 | 0.44 | 0.83 | 12 | ACT |
Interfaces
6 interfaces between chains.
- B–D · 2499 Ų buried · 14 hydrogen bonds · protein-protein
- A–C · 2256 Ų buried · 15 hydrogen bonds · protein-protein
- A–B · 310 Ų buried · 1 hydrogen bond · protein-protein
- B–C · 290 Ų buried · 0 hydrogen bonds · protein-protein
- A–D · 245 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 7BJI · Crystal structure of the Danio rerio centrosomal protein Cep135 coiled-coil fragment… · the same entry in another collection · chain D against D, TM-score 1.00
- Q5RG45 · AlphaFold monomer V2.0 prediction for centrosomal protein of 135 kda (Q5RG45) · a predicted model of the same protein · chain C against A, TM-score 0.92
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 Q5RG45
- Elsewhere: RCSB PDB 7BJI · PDBe 7BJI · UniProt Q5RG45
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