MolNFT v1 · #167367 · protein

P. putida mandelate racemase co-crystallized with phenylboronic acid

6VIM: “P. putida mandelate racemase co-crystallized with phenylboronic acid”. X-ray diffraction, 2 ligands (PBC, MG). MolNFT v1 #167367 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6VIM
Type: protein
Length: 2,856 residues
Chains: 8
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
UniProt: P11444
Ligands: PBC, MG

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F, G, H	—	protein	357	—	P11444

Ligands and binding sites

PBC · Phenyl boronic acid · ligand · 8 copies · chains A, B, C, D, E, F, G, H
MG · Magnesium ion · metal · 8 copies · chains A, B, C, D, E, F, G, H
EDO · 1,2-ethanediol · additive · 15 copies · chains A, H, B, C, E, F, G

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

Compared structures

6VIM · P. putida mandelate racemase co-crystallized with phenylboronic acid · the same entry in another collection · chain H against H, TM-score 1.00
P11444 · AlphaFold monomer V2.0 prediction for mandelate racemase (P11444) · a predicted model of the same protein · chain A against A, TM-score 0.99

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 P11444
Elsewhere: RCSB PDB 6VIM · PDBe 6VIM · UniProt P11444

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