MolNFT v1 · #91932 · protein
Arabidopsis kcbp motor domain dimerized via regulatory domain
4FRZ · Kinesin-like calmodulin-binding protein: “Arabidopsis kcbp motor domain dimerized via regulatory domain”. X-ray diffraction, 2 ligands (ADP, MG), 8 pockets (best druggability 0.65). MolNFT v1 #91932 on GenesisL1: 3D structure…
- PDB
- 4FRZ
- Type
- protein
- Length
- 705 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Kinesin-like calmodulin-binding protein
- UniProt
- Q9FHN8
- Ligands
- ADP, MG
- Pockets
- 8 · best druggability 0.65
Structure
x-ray diffraction · 2 distinct chains · 31% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Kinesin-like calmodulin-binding protein | protein | 356 | 29% helix, 26% strand | Q9FHN8 |
| B | Kinesin-like calmodulin-binding protein | protein | 349 | 32% helix, 29% strand | Q9FHN8 |
Ligands and binding sites
- ADP · Adenosine-5'-diphosphate · ligand · 2 copies · chains A, B
- MG · Magnesium ion · metal · 2 copies · chains A, B
- IMD · Imidazole · additive · 4 copies · chains A, B
- EDO · 1,2-ethanediol · additive · 3 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 420 | 0.65 | 0.78 | 42 | empty |
| 2 | 361 | 0.58 | 0.76 | 38 | empty |
| 3 | 196 | 0.51 | 0.77 | 28 | empty |
| 4 | 178 | 0.47 | 0.76 | 32 | MG |
| 5 | 120 | 0.45 | 0.78 | 33 | MG, ADP |
Interfaces
1 interface between chains.
- A–B · 677 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 4FRZ · Arabidopsis KCBP motor domain dimerized via regulatory domain · the same entry in another collection · chain A against A, TM-score 1.00
- Q9FHN8 · AlphaFold monomer V2.0 prediction for kinesin-like protein kin-14E (Q9FHN8) · a predicted model of the same protein · chain A against A, TM-score 0.93
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 Q9FHN8
- Elsewhere: RCSB PDB 4FRZ · PDBe 4FRZ · UniProt Q9FHN8
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