› 7xrm

X-ray diffraction
2.13Å resolution

Ethanolamine ammonia-lyase complexed with AdoMeCbl

Released:
DOI: 10.2210/pdb7xrm/pdb
PDB entry 7xrm coloured by chain, front view.
PDB entry 7xrm coloured by chain, side view.
PDB entry 7xrm coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Structural Insights into the Very Low Activity of the Homocoenzyme B12 Adenosylmethylcobalamin in Coenzyme B12 -Dependent Diol Dehydratase and Ethanolamine Ammonia-Lyase.
Shibata N, Higuchi Y, Kräutler B, Toraya T
Chemistry 28 e202202196 (2022)
PMID: 35974426

Function and Biology Details

Reaction catalysed: 
Ethanolamine = acetaldehyde + NH(3)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dodecamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-142468 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Ethanolamine ammonia-lyase large subunit Chains: A, C
Molecule details ›
Chains: A, C
Length: 453 amino acids
Theoretical weight: 49.45 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P0AEJ6 (Residues: 1-453; Coverage: 100%)
Gene names: JW2434, b2441, eutB
Sequence domains: Ethanolamine ammonia lyase large subunit (EutB)
Ethanolamine ammonia-lyase small subunit Chains: B, D
Molecule details ›
Chains: B, D
Length: 263 amino acids
Theoretical weight: 28.77 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P19636 (Residues: 44-295; Coverage: 85%)
Gene names: JW2433, b2440, eutC
Sequence domains: Ethanolamine ammonia-lyase light chain (EutC)

Ligands and Environments


Cofactor: Ligand B12 2 x B12
3 bound ligands:
Ligand GOL 11 x GOL
Ligand NH4 2 x NH4
Ligand FWK 2 x FWK
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL44XU
Spacegroup: P63
Unit cell:
a: 242.885Å b: 242.885Å c: 76.638Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.196 0.194 0.22
Expression system: Escherichia coli BL21

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