MolNFT v1 · #186987 · protein
Complex of amppnp-KIF7 and GLI2 zinc-finger domain bound to microtubules
7RX0 · Kinesin-like protein KIF7: “Complex of amppnp-KIF7 and GLI2 zinc-finger domain bound to microtubules”. Electron microscopy, 4 ligands (ANP, GTP, G2P), 20 pockets (best druggability 0.85). MolNFT v1 #186987 on GenesisL1: 3D…
- PDB
- 7RX0
- Type
- protein
- Length
- 1,261 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Kinesin-like protein KIF7; Zinc finger protein GLI2; Tubulin alpha-1A chain; Tubulin beta…
- UniProt
- Q2M1P5, P02550, P02554
- Ligands
- ANP, GTP, G2P, MG
- Pockets
- 20 · best druggability 0.85
Structure
electron microscopy · 4 distinct chains · 42% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C | Kinesin-like protein KIF7 | protein | 328 | 27% helix, 21% strand | Q2M1P5 |
| G | Zinc finger protein GLI2 | protein | 79 | 44% helix, 5% strand | — |
| A | Tubulin alpha-1A chain | protein | 428 | 46% helix, 18% strand | P02550 |
| B | Tubulin beta chain | protein | 426 | 49% helix, 18% strand | P02554 |
Ligands and binding sites
- ANP · Phosphoaminophosphonic acid-adenylate ester · ligand · chains C
- GTP · Guanosine-5'-triphosphate · ligand · chains A, B
- G2P · Phosphomethylphosphonic acid guanylate ester · ligand · chains B
- MG · Magnesium ion · metal · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 13 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1186 | 0.85 | 0.86 | 102 | empty |
| 2 | 362 | 0.85 | 0.94 | 66 | GTP |
| 3 | 142 | 0.79 | 0.95 | 34 | empty |
| 4 | 100 | 0.77 | 0.97 | 29 | empty |
| 5 | 712 | 0.75 | 0.80 | 79 | empty |
Interfaces
4 interfaces between chains.
- A–B · 1784 Ų buried · 13 hydrogen bonds · protein-protein
- C–B · 863 Ų buried · 21 hydrogen bonds · protein-protein
- C–A · 508 Ų buried · 10 hydrogen bonds · protein-protein
- C–G · 293 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 7RX0 · Complex of AMPPNP-Kif7 and Gli2 Zinc-Finger domain bound to microtubules · the same entry in another collection · chain C against C, TM-score 1.00
- P02550 · AlphaFold monomer V2.0 prediction for tubulin alpha-1A chain (P02550) · a predicted model of the same protein · chain A against A, TM-score 0.97
- Q2M1P5 · AlphaFold monomer V2.0 prediction for kinesin-like protein KIF7 (Q2M1P5) · a predicted model of the same protein · chain C 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 Q2M1P5
- Every structure of UniProt P02550
- Every structure of UniProt P02554
- Elsewhere: RCSB PDB 7RX0 · PDBe 7RX0 · UniProt Q2M1P5 · UniProt P02550 · UniProt P02554
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