Research workbench
Complex between the leucine zipper (lz) and centrosomin-motif 2 (CM2) domains of drosophila melanogaster centrosomin (cnn)
Analyse Complex between the leucine zipper (lz) and centrosomin-motif 2 (CM2) domains… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5MVW
- Type
- protein
- Length
- 206 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Centrosomin
- UniProt
- P54623
- Ligands
- ZN, CL
- Pockets
- 2 · best druggability 0.53
Structure
x-ray diffraction · 4 distinct chains · 91% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Centrosomin | protein | 60 | 93% helix, 0% strand | P54623 |
| C | Centrosomin | protein | 37 | 84% helix, 0% strand | P54623 |
| D | Centrosomin | protein | 48 | 92% helix, 0% strand | P54623 |
| B | Centrosomin | protein | 61 | 92% helix, 0% strand | P54623 |
Ligands and binding sites
- ZN · Zinc ion · metal · chains A, B
- CL · Chloride ion · ion · chains D, B
- EDO · 1,2-ethanediol · additive · 3 copies · chains D, B
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 | 127 | 0.53 | 0.81 | 20 | empty |
| 2 | 100 | 0.37 | 0.75 | 22 | empty |
Interfaces
6 interfaces between chains.
- A–B · 954 Ų buried · 11 hydrogen bonds · protein-protein
- C–D · 795 Ų buried · 3 hydrogen bonds · protein-protein
- D–B · 415 Ų buried · 4 hydrogen bonds · protein-protein
- A–C · 399 Ų buried · 4 hydrogen bonds · protein-protein
- C–B · 391 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 5MVW · Complex between the Leucine Zipper (LZ) and Centrosomin-motif 2 (CM2) domains of… · the same entry in another collection · chain B against B, TM-score 1.00
- P54623 · AlphaFold monomer V2.0 prediction for centrosomin (P54623) · a predicted model of the same protein · chain D against A, TM-score 0.94
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 P54623
- Elsewhere: RCSB PDB 5MVW · PDBe 5MVW · UniProt P54623
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.