MolNFT v1 · #58540 · protein
Crystal structure of the motor domain of human kinesin family member 3C in complex with ADP
3B6V · Kinesin-like protein KIF3C: “Crystal structure of the motor domain of human kinesin family member 3C in complex with ADP”. X-ray diffraction, 3 ligands (ADP, MG, UNX), 5 pockets (best druggability 0.72). MolNFT v1 #58540 on…
- PDB
- 3B6V
- Type
- protein
- Length
- 608 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Kinesin-like protein KIF3C
- UniProt
- O14782
- Ligands
- ADP, MG, UNX
- Pockets
- 5 · best druggability 0.72
Structure
x-ray diffraction · 2 distinct chains · 31% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Kinesin-like protein KIF3C | protein | 306 | 32% helix, 30% strand | O14782 |
| B | Kinesin-like protein KIF3C | protein | 302 | 31% helix, 30% strand | O14782 |
Ligands and binding sites
- ADP · Adenosine-5'-diphosphate · ligand · 2 copies · chains A, B
- MG · Magnesium ion · metal · 2 copies · chains A, B
- UNX · Unknown atom or ion · ion · 8 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 690 | 0.72 | 0.79 | 99 | MG, ADP |
| 2 | 482 | 0.67 | 0.78 | 39 | empty |
| 3 | 166 | 0.56 | 0.81 | 30 | UNX |
| 4 | 88 | 0.36 | 0.75 | 15 | empty |
| 5 | 69 | 0.32 | 0.74 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 1002 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 3B6V · Crystal structure of the motor domain of human kinesin family member 3C in complex with… · the same entry in another collection · chain A against A, TM-score 1.00
- O14782 · AlphaFold monomer V2.0 prediction for kinesin-like protein KIF3C (O14782) · a predicted model of the same protein · chain B against A, TM-score 0.98
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 O14782
- Elsewhere: RCSB PDB 3B6V · PDBe 3B6V · UniProt O14782
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