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Crystal structure of archaeal O-phosphoseryl-tRNA(Sec) selenium transferase (SepSecS)

X-ray diffraction
2.5Å resolution
PDB entry 2z67 coloured by chain, front view.
PDB entry 2z67 coloured by chain, side view.
PDB entry 2z67 coloured by chain, top view.
Source organism: Methanococcus maripaludis S2
Assemblies composition:
homo tetramer
homo dimer (preferred)
Entry contents: 1 distinct polypeptide molecule

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Assemblies

Assembly 1
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Assembly Name: O-phosphoseryl-tRNA(Sec) selenium transferase
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Multimeric state: homo tetramer
Accessible surface area: 56508.79 Å2
Buried surface area: 28235.71 Å2
Dissociation area: 4,891.16 Å2
Dissociation energy (ΔGdiss): 67.87 kcal/mol
Dissociation entropy (TΔSdiss): 16.43 kcal/mol
Symmetry number: 4
PDBe Complex ID: PDB-CPX-179876
Assembly 2 (preferred)
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Assembly Name: O-phosphoseryl-tRNA(Sec) selenium transferase
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Multimeric state: homo dimer
Accessible surface area: 33185.44 Å2
Buried surface area: 9213.09 Å2
Dissociation area: 4,055.64 Å2
Dissociation energy (ΔGdiss): 63.67 kcal/mol
Dissociation entropy (TΔSdiss): 15.38 kcal/mol
Symmetry number: 2
PDBe Complex ID: PDB-CPX-179875
Assembly 3
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Assembly Name: O-phosphoseryl-tRNA(Sec) selenium transferase
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Multimeric state: homo dimer
Accessible surface area: 33074.14 Å2
Buried surface area: 9271.83 Å2
Dissociation area: 4,105.59 Å2
Dissociation energy (ΔGdiss): 59.03 kcal/mol
Dissociation entropy (TΔSdiss): 15.39 kcal/mol
Symmetry number: 2
PDBe Complex ID: PDB-CPX-179875
Assembly 4
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Assembly Name: O-phosphoseryl-tRNA(Sec) selenium transferase
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Multimeric state: homo dimer
Accessible surface area: 37100.94 Å2
Buried surface area: 5199.0 Å2
Dissociation area: 2,093.85 Å2
Dissociation energy (ΔGdiss): 30.03 kcal/mol
Dissociation entropy (TΔSdiss): 14.65 kcal/mol
Symmetry number: 2
PDBe Complex ID: PDB-CPX-179875
Assembly 5
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Assembly Name: O-phosphoseryl-tRNA(Sec) selenium transferase
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Multimeric state: homo dimer
Accessible surface area: 36689.62 Å2
Buried surface area: 5754.94 Å2
Dissociation area: 2,183.64 Å2
Dissociation energy (ΔGdiss): 26.02 kcal/mol
Dissociation entropy (TΔSdiss): 14.67 kcal/mol
Symmetry number: 2
PDBe Complex ID: PDB-CPX-179875

Macromolecules

O-phosphoseryl-tRNA(Sec) selenium transferase
Chains: A, B, C, D
Length: 456 amino acids
Theoretical weight: 51.15 KDa
Source organism: Methanococcus maripaludis S2
Expression system: Escherichia coli
UniProt:
  • Canonical: Q6LZM9 (Residues: 1-436; Coverage: 100%)
Gene names: MMP0595, spcS
Pfam: O-phosphoseryl-tRNA(Sec) selenium transferase, SepSecS
InterPro:
CATH: Type I PLP-dependent aspartate aminotransferase-like (Major domain)
SCOP: SepSecS-like
O-phosphoseryl-tRNA(Sec) selenium transferase in PDB entry 2z67, assembly 2, front view.
O-phosphoseryl-tRNA(Sec) selenium transferase in PDB entry 2z67, assembly 2, side view.
O-phosphoseryl-tRNA(Sec) selenium transferase in PDB entry 2z67, assembly 2, top view.
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