GL1X · GenesisL1 explorer

MolNFT v2 · #172063 · protein

Tubulin-7-Aminonoscapine complex

6Y6D: “Tubulin-7-Aminonoscapine complex”. X-ray diffraction at 2.2, 6 ligands (GTP, GDP, OBQ). MolNFT v2 #172063 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB
6Y6D
Type
protein
Length
2,177 residues
Chains
6
Method
x-ray diffraction
Collection
MolNFT v2 / PDB Bank
Contract
0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner
0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution
2.2
Source
Bos taurus; Gallus gallus; Rattus norvegicus
UniProt
P81947, Q6B856, P63043, E1BQ43
Ligands
GTP, GDP, OBQ, ACP, MG, CA

Structure

x-ray diffraction · resolution 2.2 · 6 distinct chains.

ChainMoleculeTypeResiduesSecondary structureUniProt
A—protein439—P81947
B—protein422—Q6B856
C—protein440—P81947
D—protein421—Q6B856
E—protein122—P63043
F—protein333—E1BQ43

Ligands and binding sites

  • GTP · Guanosine-5'-triphosphate · ligand · 2 copies · chains A, B, C, D
  • GDP · Guanosine-5'-diphosphate · ligand · 2 copies · chains B, D
  • OBQ · (3~{S})-7-azanyl-6-methoxy-3-[(5~{R})-4-methoxy-6-methyl-7,8-dihydro-5~{H}-[1,3]dioxolo[4,5-g]isoquinolin-5-yl]-3~{H}-2-benzofuran-1-one · ligand · 2 copies · chains A, B, C, D
  • ACP · Phosphomethylphosphonic acid adenylate ester · ligand · chains F
  • MG · Magnesium ion · metal · 5 copies · chains A, B, D, F
  • CA · Calcium ion · metal · 2 copies · chains A, C
  • MES · 2-(N-morpholino)-ethanesulfonic acid · additive · chains A, B
  • GOL · Glycerol · additive · chains B

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Compared structures

  • 6Y6D · Tubulin-7-aminonoscapine complex · the same entry in another collection · chain F against F, TM-score 1.00
  • P81947 · AlphaFold monomer V2.0 prediction for tubulin alpha-1B chain (P81947) · a predicted model of the same protein · chain C against A, TM-score 0.96

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