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Crystal structure of extracellular solute-binding protein from bifidobacterium longum subsp. infantis

Analyse Crystal structure of extracellular solute-binding protein from bifidobacterium… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3OMB
Type: protein
Length: 503 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Extracellular solute-binding protein, family 1
UniProt: B7GNQ3
Ligands: MG
Pockets: 3 · best druggability 0.68

Structure

x-ray diffraction · 1 distinct chain · 48% helix, 16% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Extracellular solute-binding protein, family 1	protein	503	48% helix, 16% strand	B7GNQ3

Ligands and binding sites

MG · Magnesium ion · metal · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	743	0.68	0.75	77	empty
2	132	0.43	0.76	20	empty
3	55	0.43	0.82	16	empty

Modifications

Observed in the structure: 12 modified (engineered).

Compared structures

3OMB · Crystal structure of extracellular solute-binding protein from Bifidobacterium longum… · the same entry in another collection · 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 B7GNQ3
Elsewhere: RCSB PDB 3OMB · PDBe 3OMB · UniProt B7GNQ3

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