MolNFT v1 · #161592 · protein
Organizational principles of the numa-dynein interaction interface and implications for mitotic spindle functions
6QJA · Nuclear mitotic apparatus protein 1: “Organizational principles of the numa-dynein interaction interface and implications for mitotic spindle…”. X-ray diffraction, 2 ligands (MG, CL), 5 pockets (best druggability 0.62). MolNFT v1…
- PDB
- 6QJA
- Type
- protein
- Length
- 602 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nuclear mitotic apparatus protein 1
- UniProt
- Q14980
- Ligands
- MG, CL
- Pockets
- 5 · best druggability 0.62
Structure
x-ray diffraction · 4 distinct chains · 63% helix, 1% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Nuclear mitotic apparatus protein 1 | protein | 157 | 62% helix, 0% strand | Q14980 |
| B | Nuclear mitotic apparatus protein 1 | protein | 148 | 64% helix, 1% strand | Q14980 |
| C | Nuclear mitotic apparatus protein 1 | protein | 144 | 65% helix, 0% strand | Q14980 |
| D | Nuclear mitotic apparatus protein 1 | protein | 153 | 63% helix, 1% strand | Q14980 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 429 | 0.62 | 0.77 | 39 | empty |
| 2 | 157 | 0.49 | 0.77 | 20 | empty |
| 3 | 150 | 0.44 | 0.76 | 23 | empty |
| 4 | 126 | 0.39 | 0.74 | 21 | empty |
| 5 | 67 | 0.29 | 0.73 | 12 | empty |
Interfaces
4 interfaces between chains.
- A–B · 865 Ų buried · 4 hydrogen bonds · protein-protein
- B–D · 417 Ų buried · 3 hydrogen bonds · protein-protein
- B–C · 263 Ų buried · 1 hydrogen bond · protein-protein
- A–C · 203 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 6QJA · Organizational principles of the NuMA-Dynein interaction interface and implications for… · the same entry in another collection · chain D against D, TM-score 1.00
- Q14980 · AlphaFold monomer V2.0 prediction for nuclear mitotic apparatus protein 1 (Q14980) · a predicted model of the same protein · chain B against A, TM-score 0.85
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 Q14980
- Elsewhere: RCSB PDB 6QJA · PDBe 6QJA · UniProt Q14980
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