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Crystal structure of a galactofuranose binding protein

Analyse Crystal structure of a galactofuranose binding protein in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2VK2
Type: protein
Length: 296 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: ABC transporter periplasmic-binding protein ytfq
UniProt: P39325
Ligands: GZL
Pockets: 1 · best druggability 0.24

Structure

x-ray diffraction · 1 distinct chain · 44% helix, 21% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	ABC transporter periplasmic-binding protein ytfq	protein	296	44% helix, 21% strand	P39325

Ligands and binding sites

GZL · beta-D-galactofuranose · ligand · 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, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	54	0.24	0.72	17	empty

Modifications

Observed in the structure: 1 disulfide (disulfide).

Compared structures

2VK2 · Crystal structure of a galactofuranose binding protein · the same entry in another collection · chain A against A, TM-score 1.00
P39325 · AlphaFold monomer V2.0 prediction for galactofuranose-binding protein ytfq (P39325) · a predicted model of the same protein · 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 P39325
Elsewhere: RCSB PDB 2VK2 · PDBe 2VK2 · UniProt P39325

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