MolNFT v1 · #157445 · protein
Structural basis of tubulin recruitment and assembly by microtubule polymerases with tumor overexpressed gene (tog) domain arrays
6MZF · Tubulin alpha-1A chain: “Structural basis of tubulin recruitment and assembly by microtubule polymerases with tumor overexpressed gene…”. X-ray diffraction, 3 ligands (GTP, GDP, MG), 20 pockets (best druggability 0.81). MolNFT v1…
- PDB
- 6MZF
- Type
- protein
- Length
- 9,989 residues
- Chains
- 28
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tubulin alpha-1A chain; Tubulin beta chain; Protein STU2P/ALP14P; Designed ankyrin repeat…
- UniProt
- P02550, P02554
- Ligands
- GTP, GDP, MG
- Pockets
- 20 · best druggability 0.81
Structure
x-ray diffraction · 7 distinct chains · 61% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, H, J, O, Q, V, X | Tubulin alpha-1A chain | protein | 423 | 45% helix, 17% strand | P02550 |
| B, D, I, K, P, R, W, Y | Tubulin beta chain | protein | 424 | 47% helix, 17% strand | P02554 |
| E | Protein STU2P/ALP14P | protein | 491 | 67% helix, 0% strand | — |
| F, G, M, N, T, U, a, b | Designed ankyrin repeat protein (darpin) D1 | protein | 155 | 56% helix, 0% strand | — |
| L | Protein STU2P/ALP14P | protein | 494 | 68% helix, 0% strand | — |
| S | Protein STU2P/ALP14P | protein | 493 | 68% helix, 0% strand | — |
| Z | Protein STU2P/ALP14P | protein | 495 | 68% helix, 0% strand | — |
Ligands and binding sites
- GTP · Guanosine-5'-triphosphate · ligand · 8 copies · chains A, B, C, D, H, I, J, K, O, P, Q, R, V, W, X, Y
- GDP · Guanosine-5'-diphosphate · ligand · 8 copies · chains B, D, I, K, P, R, W, Y
- MG · Magnesium ion · metal · 16 copies · chains A, B, C, D, H, I, J, K, O, P, Q, R, V, W, X, Y
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 781 | 0.81 | 0.85 | 88 | empty |
| 2 | 965 | 0.80 | 0.82 | 95 | GTP, MG |
| 3 | 986 | 0.80 | 0.81 | 98 | GTP, MG |
| 4 | 982 | 0.80 | 0.81 | 91 | GTP, MG |
| 5 | 428 | 0.79 | 0.88 | 56 | GTP, MG |
Interfaces
46 interfaces between chains.
- H–I · 1412 Ų buried · 16 hydrogen bonds · protein-protein
- V–W · 1405 Ų buried · 15 hydrogen bonds · protein-protein
- A–B · 1397 Ų buried · 16 hydrogen bonds · protein-protein
- C–D · 1371 Ų buried · 13 hydrogen bonds · protein-protein
- Q–R · 1359 Ų buried · 14 hydrogen bonds · protein-protein
Compared structures
- 6MZF · Structural Basis of Tubulin Recruitment and Assembly by Microtubule Polymerases with… · the same entry in another collection · chain A against A, TM-score 1.00
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 P02550
- Every structure of UniProt P02554
- Elsewhere: RCSB PDB 6MZF · PDBe 6MZF · UniProt P02550 · UniProt P02554
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