Research workbench
13-pf 3-start gmpcpp-human ALPHA1B/BETA3 microtubules
Analyse 13-pf 3-start gmpcpp-human ALPHA1B/BETA3 microtubules in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6E7B
- Type
- protein
- Length
- 854 residues
- Chains
- 2
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tubulin beta-3 chain; Tubulin alpha-1B chain
- UniProt
- Q13509, P68363
- Ligands
- G2P, GTP, MG
- Pockets
- 9 · best druggability 0.83
Structure
electron microscopy · 2 distinct chains · 45% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Tubulin beta-3 chain | protein | 426 | 46% helix, 14% strand | Q13509 |
| A | Tubulin alpha-1B chain | protein | 428 | 45% helix, 15% strand | P68363 |
Ligands and binding sites
- G2P · Phosphomethylphosphonic acid guanylate ester · ligand · chains B
- GTP · Guanosine-5'-triphosphate · ligand · chains B, A
- MG · Magnesium ion · metal · 2 copies · chains B, A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 210 | 0.83 | 0.96 | 36 | MG, GTP |
| 2 | 292 | 0.66 | 0.82 | 37 | MG, G2P |
| 3 | 200 | 0.58 | 0.80 | 24 | empty |
| 4 | 245 | 0.57 | 0.78 | 28 | empty |
| 5 | 164 | 0.48 | 0.77 | 24 | empty |
Interfaces
1 interface between chains.
- B–A · 2062 Ų buried · 24 hydrogen bonds · protein-protein
Compared structures
- 6E7B · 13-pf 3-start GMPCPP-human alpha1B/beta3 microtubules · the same entry in another collection · chain B against B, TM-score 1.00
- P68363 · AlphaFold monomer V2.0 prediction for tubulin alpha-1B chain (P68363) · a predicted model of the same protein · chain A against A, TM-score 0.99
- Q13509 · AlphaFold monomer V2.0 prediction for tubulin beta-3 chain (Q13509) · a predicted model of the same protein · chain B against A, TM-score 0.97
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 Q13509
- Every structure of UniProt P68363
- Elsewhere: RCSB PDB 6E7B · PDBe 6E7B · UniProt Q13509 · UniProt P68363
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