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Crystal structure of a trap periplasmic solute binding protein from fusobacterium nucleatun (FN1258, target efi-510120) with bound sn- glycerol-3-phosphate

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

PDB: 4PFB
Type: protein
Length: 308 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: C4-dicarboxylate-binding protein
UniProt: Q8RE65
Ligands: G3P, ZN
Pockets: 1 · best druggability 0.71

Structure

x-ray diffraction · 1 distinct chain · 51% helix, 20% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	C4-dicarboxylate-binding protein	protein	308	51% helix, 20% strand	Q8RE65

Ligands and binding sites

G3P · Sn-glycerol-3-phosphate · ligand · chains A
ZN · Zinc ion · metal · 5 copies · chains A
IMD · Imidazole · additive · 2 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	112	0.71	0.92	39	G3P

Compared structures

4PFB · Crystal structure of a TRAP periplasmic solute binding protein from Fusobacterium… · 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 Q8RE65
Elsewhere: RCSB PDB 4PFB · PDBe 4PFB · UniProt Q8RE65

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