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Hexameric Form II RuBisCO from Rhodopseudomonas palustris, activated and complexed with sulfate and magnesium

X-ray diffraction
2.38Å resolution
PDB entry 4lf2 coloured by chain, front view.
PDB entry 4lf2 coloured by chain, side view.
PDB entry 4lf2 coloured by chain, top view.
Source organism: Rhodopseudomonas palustris CGA009
Assemblies composition:
homo hexamer
homo dimer (preferred)
Entry contents: 1 distinct polypeptide molecule

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Assemblies

Assembly 1
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Assembly Name: Ribulose bisphosphate carboxylase
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Multimeric state: homo hexamer
Accessible surface area: 79847.71 Å2
Buried surface area: 36742.05 Å2
Dissociation area: 3,639.99 Å2
Dissociation energy (ΔGdiss): 1.12 kcal/mol
Dissociation entropy (TΔSdiss): 32.01 kcal/mol
Symmetry number: 6
PDBe Complex ID: PDB-CPX-179932
Homo hexameric assembly 1 of PDB entry 4lf2 coloured by chemically distinct molecules, front view.
Homo hexameric assembly 1 of PDB entry 4lf2 coloured by chemically distinct molecules, side view.
Homo hexameric assembly 1 of PDB entry 4lf2 coloured by chemically distinct molecules, top view.
    Assembly 1
Confidence : 31%
No. subunits : 6
Symmetry : D3
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3DComplex & QSbio predictionx
No. subunits : 6
Symmetry : D3
Evidence : Sequence is/are identical to 4lf2_4 (which is supposedly correct) but the structure is different, and it might form a higher-order oligomer
Assembly 2
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Assembly Name: Ribulose bisphosphate carboxylase
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Multimeric state: homo dimer
Accessible surface area: 28928.65 Å2
Buried surface area: 10056.24 Å2
Dissociation area: 4,285.29 Å2
Dissociation energy (ΔGdiss): 73.21 kcal/mol
Dissociation entropy (TΔSdiss): 15.41 kcal/mol
Symmetry number: 2
PDBe Complex ID: PDB-CPX-179931
Homo dimeric assembly 2 of PDB entry 4lf2 coloured by chemically distinct molecules, front view.
Homo dimeric assembly 2 of PDB entry 4lf2 coloured by chemically distinct molecules, side view.
Homo dimeric assembly 2 of PDB entry 4lf2 coloured by chemically distinct molecules, top view.
    Assembly 2
Confidence : 98%
No. subunits : 2
Symmetry : C2
More details
3DComplex & QSbio predictionx
No. subunits : 2
Symmetry : C2
Evidence : Interface geometry is similar to that of 1ykw_1 (28% id)
Assembly 3 (preferred)
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Assembly Name: Ribulose bisphosphate carboxylase
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Multimeric state: homo dimer
Accessible surface area: 29154.15 Å2
Buried surface area: 9939.56 Å2
Dissociation area: 4,319.03 Å2
Dissociation energy (ΔGdiss): 73.45 kcal/mol
Dissociation entropy (TΔSdiss): 15.41 kcal/mol
Symmetry number: 2
PDBe Complex ID: PDB-CPX-179931
Homo dimeric assembly 3 of PDB entry 4lf2 coloured by chemically distinct molecules, front view.
Homo dimeric assembly 3 of PDB entry 4lf2 coloured by chemically distinct molecules, side view.
Homo dimeric assembly 3 of PDB entry 4lf2 coloured by chemically distinct molecules, top view.
    Assembly 3
Confidence : 98%
No. subunits : 2
Symmetry : C2
More details
3DComplex & QSbio predictionx
No. subunits : 2
Symmetry : C2
Evidence : Interface geometry is similar to that of 1ykw_1 (28% id)
Assembly 4
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Assembly Name: Ribulose bisphosphate carboxylase
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Multimeric state: homo dimer
Accessible surface area: 29044.88 Å2
Buried surface area: 9466.27 Å2
Dissociation area: 4,256.73 Å2
Dissociation energy (ΔGdiss): 65.52 kcal/mol
Dissociation entropy (TΔSdiss): 15.4 kcal/mol
Symmetry number: 2
PDBe Complex ID: PDB-CPX-179931
Homo dimeric assembly 4 of PDB entry 4lf2 coloured by chemically distinct molecules, front view.
Homo dimeric assembly 4 of PDB entry 4lf2 coloured by chemically distinct molecules, side view.
Homo dimeric assembly 4 of PDB entry 4lf2 coloured by chemically distinct molecules, top view.
    Assembly 4
Confidence : 98%
No. subunits : 2
Symmetry : C2
More details
3DComplex & QSbio predictionx
No. subunits : 2
Symmetry : C2
Evidence : Interface geometry is similar to that of 1ykw_1 (28% id)

Macromolecules

Ribulose bisphosphate carboxylase
Chains: A, B, C, D, E, F
Length: 481 amino acids
Theoretical weight: 52.76 KDa
Source organism: Rhodopseudomonas palustris CGA009
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q6N0W9 (Residues: 1-461; Coverage: 100%)
Gene names: RPA4641, cbbM
Pfam:
InterPro:
CATH:
Ribulose bisphosphate carboxylase in PDB entry 4lf2, assembly 3, front view.
Ribulose bisphosphate carboxylase in PDB entry 4lf2, assembly 3, side view.
Ribulose bisphosphate carboxylase in PDB entry 4lf2, assembly 3, top view.
PDBe-KB: UniProt Coverage View: Q6N0W9  
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