› 7kng

X-ray diffraction
2.1Å resolution

2.10A resolution structure of independent Phosphoglycerate mutase from C. elegans in complex with a macrocyclic peptide inhibitor (Ce-2 Y7F)

Released:
DOI: 10.2210/pdb7kng/pdb
Model geometry
Fit model/data
PDB entry 7kng coloured by chain, front view.
PDB entry 7kng coloured by chain, side view.
PDB entry 7kng coloured by chain, top view.
Source organism: Caenorhabditis elegans
Primary publication:
Structure-activity relationship of ipglycermide binding to phosphoglycerate mutases.
Wiedmann M, Dranchak PK, Aitha M, Queme B, Collmus CD, Kashipathy MM, Kanter L, Lamy L, Rogers JM, Tao D, Battaile KP, Rai G, Lovell S, Suga H, Inglese J
OpenAccess logo J Biol Chem 296 100628
PMID: 33812994

Function and Biology Details

Reaction catalysed: 
2-phospho-D-glycerate = 3-phospho-D-glycerate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-279267 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
2,3-bisphosphoglycerate-independent phosphoglycerate mutase Chains: A, B
Molecule details ›
Chains: A, B
Length: 538 amino acids
Theoretical weight: 59.26 KDa
Source organism: Caenorhabditis elegans
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: G5EFZ1 (Residues: 19-539; Coverage: 97%)
Gene names: F57B10.3, ipgm-1
Sequence domains:
DTY-ASP-TYR-PRO-GLY-ASP-PHE-CYS-TYR-LEU-TYR-GLY-THR-CYS Chains: C, D
Molecule details ›
Chains: C, D
Length: 16 amino acids
Theoretical weight: 1.7 KDa
Source organism: Caenorhabditis elegans
Expression system: Not provided

Ligands and Environments

3 bound ligands:
Ligand CL 4 x CL
Ligand NA 4 x NA
Ligand ZN 4 x ZN
1 modified residue:
Ligand DTY 2 x DTY

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: NSLS-II BEAMLINE 17-ID-1
Spacegroup: P2
Unit cell:
a: 73.862Å b: 75.471Å c: 101.36Å
α: 90° β: 99.11° γ: 90°
R-values:
R R work R free
0.169 0.167 0.22
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

1 review citation

Engineering tRNAs for the Ribosomal Translation of Non-proteinogenic Monomers.
Sigal et al. (2024)
1 other article

2 mentions without citation

Serum-Stable and Selective Backbone-N-Methylated Cyclic Peptides That Inhibit Prokaryotic Glycolytic Mutases.
van Neer et al. (2022)
1 more