PDBsum entry 7c8h

Lyase

PDB id: 7c8h

Contents

Protein chains

(+ 2 more) 807 a.a.

Ligands

TPP ×8

LMR ×2

MLA ×3

SIN ×3

Metals

_CA ×8

Waters ×1106

PDB id:

7c8h

Name:

Lyase

Title:

Ambient temperature structure of bifidobacterium longum phosphoketolase with thiamine diphosphate

Structure:

Xylulose-5-phosphate/fructose-6-phosphate phosphoketolase. Chain: a, b, c, d, e, f, g, h. Engineered: yes

Source:

Bifidobacterium longum. Organism_taxid: 216816. Gene: xfp. Expressed in: escherichia coli bl21(de3). Expression_system_taxid: 469008

Resolution:

2.50Å R-factor: 0.164 R-free: 0.218

Authors:

K.Nakata,T.Kashiwagi,E.Nango,H.Miyano,T.Mizukoshi,S.Iwata

Key ref:

K.Nakata et al. Ambient temperature structure of bifidobacterium long phosphoketolase with thiamine diphosphate. To be published, . PubMed id: 36974963

Date:

01-Jun-20 Release date: 02-Jun-21

Protein chains

Q6R2Q7  (Q6R2Q7_BIFLN) -  Xylulose-5-phosphate/fructose-6-phosphate phosphoketolase from Bifidobacterium longum

Seq: 825 a.a.

Struc: 807 a.a.*

* PDB and UniProt seqs differ at 1 residue position (black cross)

Enzyme reactions

• Enzyme class: E.C.4.1.2.22 - fructose-6-phosphate phosphoketolase.
• Reaction: keto-D-fructose 6-phosphate + phosphate = acetyl phosphate + D-erythrose 4-phosphate + H2O

keto-D-fructose 6-phosphate + phosphate = acetyl phosphate + D-erythrose 4-phosphate (Bound ligand (Het Group name = LMR) matches with 50.00% similarity) + H2O

• Cofactor: Thiamine diphosphate

Thiamine diphosphate (Bound ligand (Het Group name = TPP) corresponds exactly)

Molecule diagrams generated from .mol files obtained from the KEGG ftp site