MolNFT v1 · #110827 · protein

Crystal structure of triosephosphate isomerase from clostridium perfringens

4Y8F: “Crystal structure of triosephosphate isomerase from clostridium perfringens”. X-ray diffraction, 1 ligand (NA), 2 pockets (best druggability 0.42). MolNFT v1 #110827 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 4Y8F
Type: protein
Length: 251 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Triosephosphate isomerase
EC: 5.3.1.1
UniProt: Q8XKU1
Ligands: NA
Pockets: 2 · best druggability 0.42

Structure

x-ray diffraction · 1 distinct chain · 46% helix, 15% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Triosephosphate isomerase (EC 5.3.1.1)	protein	251	46% helix, 15% strand	Q8XKU1

Ligands and binding sites

NA · Sodium ion · metal · 3 copies · chains A
ACT · Acetate ion · additive · 2 copies · chains A

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

Pockets

2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	99	0.42	0.78	19	empty
2	72	0.39	0.79	17	empty

Compared structures

4Y8F · Crystal structure of Triosephosphate Isomerase from Clostridium perfringens · the same entry in another collection · chain A against A, TM-score 1.00
Q8XKU1 · AlphaFold monomer V2.0 prediction for triosephosphate isomerase (Q8XKU1) · a predicted model of the same protein · chain A against A, TM-score 0.98

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 Q8XKU1
Elsewhere: RCSB PDB 4Y8F · PDBe 4Y8F · UniProt Q8XKU1

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