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Crystal structure of UDP-galactopyranose mutase (oxidized form) in complex with substrate

X-ray diffraction
2.36Å resolution
PDB entry 3hdq coloured by chain, front view.
PDB entry 3hdq coloured by chain, side view.
PDB entry 3hdq coloured by chain, top view.
Source organism: Deinococcus radiodurans
Assemblies composition:
homo dimer (preferred)
homo decamer
Entry contents: 1 distinct polypeptide molecule

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Assemblies

Assembly 1 (preferred)
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Assembly Name: UDP-galactopyranose mutase C-terminal domain-containing protein
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Multimeric state: homo dimer
Accessible surface area: 29324.78 Å2
Buried surface area: 7391.18 Å2
Dissociation area: 1,194.04 Å2
Dissociation energy (ΔGdiss): 0.35 kcal/mol
Dissociation entropy (TΔSdiss): 14.09 kcal/mol
Symmetry number: 2
PDBe Complex ID: PDB-CPX-577048
Assembly 2
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Assembly Name: UDP-galactopyranose mutase C-terminal domain-containing protein
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Multimeric state: homo dimer
Accessible surface area: 29252.8 Å2
Buried surface area: 7370.0 Å2
Dissociation area: 1,176.7 Å2
Dissociation energy (ΔGdiss): 2.51 kcal/mol
Dissociation entropy (TΔSdiss): 14.08 kcal/mol
Symmetry number: 2
PDBe Complex ID: PDB-CPX-577048
Assembly 3
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Assembly Name: UDP-galactopyranose mutase C-terminal domain-containing protein
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Multimeric state: homo dimer
Accessible surface area: 29496.09 Å2
Buried surface area: 7238.35 Å2
Dissociation area: 1,105.41 Å2
Dissociation energy (ΔGdiss): 4.5 kcal/mol
Dissociation entropy (TΔSdiss): 14.06 kcal/mol
Symmetry number: 2
PDBe Complex ID: PDB-CPX-577048
Assembly 4
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Assembly Name: UDP-galactopyranose mutase C-terminal domain-containing protein
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Multimeric state: homo dimer
Accessible surface area: 28976.81 Å2
Buried surface area: 7173.36 Å2
Dissociation area: 1,075.35 Å2
Dissociation energy (ΔGdiss): 2.04 kcal/mol
Dissociation entropy (TΔSdiss): 14.03 kcal/mol
Symmetry number: 2
PDBe Complex ID: PDB-CPX-577048
Assembly 5
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Assembly Name: UDP-galactopyranose mutase C-terminal domain-containing protein
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Multimeric state: homo dimer
Accessible surface area: 29310.05 Å2
Buried surface area: 7249.78 Å2
Dissociation area: 1,118.67 Å2
Dissociation energy (ΔGdiss): 1.96 kcal/mol
Dissociation entropy (TΔSdiss): 14.07 kcal/mol
Symmetry number: 2
PDBe Complex ID: PDB-CPX-577048
Assembly 6
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Assembly Name: UDP-galactopyranose mutase C-terminal domain-containing protein
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Multimeric state: homo decamer
Accessible surface area: 132256.16 Å2
Buried surface area: 50527.04 Å2
Dissociation area: 12,722.35 Å2
Dissociation energy (ΔGdiss): 12.77 kcal/mol
Dissociation entropy (TΔSdiss): 134.84 kcal/mol
Symmetry number: 10
PDBe Complex ID: PDB-CPX-577047

Macromolecules

UDP-galactopyranose mutase C-terminal domain-containing protein
Chains: A, B, C, D, E, F, G, H, I, J
Length: 397 amino acids
Theoretical weight: 45.74 KDa
Source organism: Deinococcus radiodurans
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9RYF1 (Residues: 1-397; Coverage: 100%)
Gene name: DR_A0367
Pfam:
InterPro:
CATH: NAD(P)-binding Rossmann-like Domain
UDP-galactopyranose mutase C-terminal domain-containing protein in PDB entry 3hdq, assembly 1, front view.
UDP-galactopyranose mutase C-terminal domain-containing protein in PDB entry 3hdq, assembly 1, side view.
UDP-galactopyranose mutase C-terminal domain-containing protein in PDB entry 3hdq, assembly 1, top view.
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