Research workbench
Crystal structure of the drosophila kinesin family member nod in complex with amppnp
Analyse Crystal structure of the drosophila kinesin family member nod in complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3DCB
- Type
- protein
- Length
- 299 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Kinesin-like protein nod
- UniProt
- P18105
- Ligands
- ANP, MG
- Pockets
- 3 · best druggability 0.60
Structure
x-ray diffraction · 1 distinct chain · 33% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Kinesin-like protein nod | protein | 299 | 33% helix, 23% strand | P18105 |
Ligands and binding sites
- ANP · Phosphoaminophosphonic acid-adenylate ester · ligand · chains A
- MG · Magnesium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 247 | 0.60 | 0.79 | 31 | empty |
| 2 | 86 | 0.39 | 0.77 | 16 | empty |
| 3 | 53 | 0.31 | 0.77 | 23 | MG |
Compared structures
- 3DCB · Crystal structure of the Drosophila kinesin family member NOD in complex with AMPPNP · the same entry in another collection · chain A against A, TM-score 1.00
- P18105 · AlphaFold monomer V2.0 prediction for kinesin-like protein nod (P18105) · a predicted model of the same protein · chain A against A, TM-score 0.96
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 P18105
- Elsewhere: RCSB PDB 3DCB · PDBe 3DCB · UniProt P18105
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