MolNFT v1 · #148066 · protein

Cryo-EM structure of gtpgammas-microtubule co-polymerised with doublecortin

6EVY · Tubulin alpha-1B chain: “Cryo-EM structure of gtpgammas-microtubule co-polymerised with doublecortin”. Electron microscopy, 3 ligands (GTP, GSP, MG), 20 pockets (best druggability 0.85). MolNFT v1 #148066 on GenesisL1: 3D structure…

PDB: 6EVY
Type: protein
Length: 5,166 residues
Chains: 12
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Tubulin alpha-1B chain; Tubulin beta chain
UniProt: Q2XVP4, P02554
Ligands: GTP, GSP, MG
Pockets: 20 · best druggability 0.85

Structure

electron microscopy · 2 distinct chains · 42% helix, 17% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
E, J, C, L, A, K	Tubulin alpha-1B chain	protein	432	41% helix, 15% strand	Q2XVP4
F, G, D, I, B, H	Tubulin beta chain	protein	429	42% helix, 18% strand	P02554

Ligands and binding sites

GTP · Guanosine-5'-triphosphate · ligand · 6 copies · chains E, G, F, J, C, I, L, D, A, H, K, B
GSP · 5'-guanosine-diphosphate-monothiophosphate · ligand · 6 copies · chains E, F, G, C, D, I, A, B, H
MG · Magnesium ion · metal · 6 copies · chains E, J, C, L, A, K

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.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	398	0.85	0.93	57	GSP
2	380	0.84	0.93	52	GSP
3	378	0.84	0.93	47	GSP
4	285	0.84	0.95	44	GTP, MG
5	282	0.83	0.95	43	GTP, MG

Interfaces

17 interfaces between chains.

F–J · 2044 Å² buried · 21 hydrogen bonds · protein-protein
A–H · 2039 Å² buried · 21 hydrogen bonds · protein-protein
K–B · 2039 Å² buried · 21 hydrogen bonds · protein-protein
E–G · 2038 Å² buried · 21 hydrogen bonds · protein-protein
L–D · 2036 Å² buried · 21 hydrogen bonds · protein-protein

Compared structures

6EVY · Cryo-EM structure of GTPgammaS-microtubule co-polymerised with doublecortin · the same entry in another collection · chain E against E, 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 Q2XVP4
Every structure of UniProt P02554
Elsewhere: RCSB PDB 6EVY · PDBe 6EVY · UniProt Q2XVP4 · UniProt P02554

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.