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Crystal structure of ColD H188K S187N

X-ray diffraction
2.2Å resolution
PDB entry 3gr9 coloured by chain, front view.
PDB entry 3gr9 coloured by chain, side view.
PDB entry 3gr9 coloured by chain, top view.
Source organism: Escherichia coli
Assembly composition:
homo dimer (preferred)
Entry contents: 1 distinct polypeptide molecule

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Assemblies

Assembly 1
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Assembly Name: Pyridoxamine 5-phosphate-dependent dehydrase
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Multimeric state: homo dimer
Accessible surface area: 28172.67 Å2
Buried surface area: 5898.48 Å2
Dissociation area: 2,707.61 Å2
Dissociation energy (ΔGdiss): 33.43 kcal/mol
Dissociation entropy (TΔSdiss): 14.63 kcal/mol
Symmetry number: 2
PDBe Complex ID: PDB-CPX-109289
Assembly 2
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Assembly Name: Pyridoxamine 5-phosphate-dependent dehydrase
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Multimeric state: homo dimer
Accessible surface area: 28340.45 Å2
Buried surface area: 5883.78 Å2
Dissociation area: 2,695.49 Å2
Dissociation energy (ΔGdiss): 29.85 kcal/mol
Dissociation entropy (TΔSdiss): 14.64 kcal/mol
Symmetry number: 2
PDBe Complex ID: PDB-CPX-109289
Assembly 3 (preferred)
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Assembly Name: Pyridoxamine 5-phosphate-dependent dehydrase
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Multimeric state: homo dimer
Accessible surface area: 28115.89 Å2
Buried surface area: 5328.77 Å2
Dissociation area: 2,593.68 Å2
Dissociation energy (ΔGdiss): 29.68 kcal/mol
Dissociation entropy (TΔSdiss): 14.61 kcal/mol
Symmetry number: 2
PDBe Complex ID: PDB-CPX-109289
Assembly 4
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Assembly Name: Pyridoxamine 5-phosphate-dependent dehydrase
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Multimeric state: homo dimer
Accessible surface area: 28413.72 Å2
Buried surface area: 5438.36 Å2
Dissociation area: 2,552.72 Å2
Dissociation energy (ΔGdiss): 28.99 kcal/mol
Dissociation entropy (TΔSdiss): 14.6 kcal/mol
Symmetry number: 2
PDBe Complex ID: PDB-CPX-109289

Macromolecules

Pyridoxamine 5-phosphate-dependent dehydrase
Chains: A, B, C, D, E, F, G, H
Length: 390 amino acids
Theoretical weight: 44.6 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: B1B4V9 (Residues: 1-388; Coverage: 100%)
Gene name: wbdK
Pfam: DegT/DnrJ/EryC1/StrS aminotransferase family
InterPro:
CATH:
Pyridoxamine 5-phosphate-dependent dehydrase in PDB entry 3gr9, assembly 3, front view.
Pyridoxamine 5-phosphate-dependent dehydrase in PDB entry 3gr9, assembly 3, side view.
Pyridoxamine 5-phosphate-dependent dehydrase in PDB entry 3gr9, assembly 3, top view.
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