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The crystal structure of the W145A variant of tpmglb-2 (TP0684) with bound glucose

Analyse The crystal structure of the W145A variant of tpmglb-2 (TP0684) with bound… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6BGD
Type: protein
Length: 373 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: GLUCOSE/GALACTOSE-binding lipoprotein
UniProt: Q08255
Ligands: CA
Pockets: 1 · best druggability 0.65

Structure

x-ray diffraction · 1 distinct chain · 36% helix, 21% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	GLUCOSE/GALACTOSE-binding lipoprotein	protein	373	36% helix, 21% strand	Q08255

Ligands and binding sites

CA · Calcium ion · metal · chains A
EDO · 1,2-ethanediol · additive · 10 copies · chains A

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

Pockets

1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	508	0.65	0.77	57	EDO

Compared structures

6BGD · The crystal structure of the W145A variant of TpMglB-2 (Tp0684) with bound ligand · the same entry in another collection · chain A against A, TM-score 1.00
Q08255 · AlphaFold monomer V2.0 prediction for GLUCOSE/GALACTOSE-binding lipoprotein (Q08255) · a predicted model of the same protein · chain A against A, TM-score 0.78

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 Q08255
Elsewhere: RCSB PDB 6BGD · PDBe 6BGD · UniProt Q08255

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