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Crystal structure of the S. cerevisiae condensin Ycg1-Brn1 subcomplex bound to DNA (short kleisin loop)

X-ray diffraction
3.15Å resolution
PDB entry 5oqn coloured by chain, front view.
PDB entry 5oqn coloured by chain, side view.
PDB entry 5oqn coloured by chain, top view.
Source organism: Saccharomyces cerevisiae S288C
Assembly composition:
hetero tetramer (preferred)
Entry contents: 2 distinct polypeptide molecules
1 distinct DNA molecule

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Assemblies

Assembly 1 (preferred)
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Assembly Name: Condensin complex and DNA
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Multimeric state: hetero tetramer
Accessible surface area: 49118.91 Å2
Buried surface area: 10419.95 Å2
Dissociation area: 1,456.69 Å2
Dissociation energy (ΔGdiss): -3.87 kcal/mol
Dissociation entropy (TΔSdiss): 22.99 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-119111

Macromolecules

Condensin complex subunit 3
Chain: A
Length: 871 amino acids
Theoretical weight: 99.72 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli K-12
UniProt:
  • Canonical: Q06680 (Residues: 6-932; Coverage: 84%)
Gene names: YCG1, YCS5, YDR325W
Pfam: Nuclear condensing complex subunits, C-term domain
InterPro:
Condensin complex subunit 3 in PDB entry 5oqn, assembly 1, front view.
Condensin complex subunit 3 in PDB entry 5oqn, assembly 1, side view.
Condensin complex subunit 3 in PDB entry 5oqn, assembly 1, top view.
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Condensin complex subunit 2
Chain: B
Length: 125 amino acids
Theoretical weight: 15.12 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli K-12
UniProt:
  • Canonical: P38170 (Residues: 384-529; Coverage: 16%)
Gene names: BRN1, YBL0830, YBL097W
InterPro: Condensin complex subunit 2/barren
Condensin complex subunit 2 in PDB entry 5oqn, assembly 1, front view.
Condensin complex subunit 2 in PDB entry 5oqn, assembly 1, side view.
Condensin complex subunit 2 in PDB entry 5oqn, assembly 1, top view.
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DNA chains C, D
Name: DNA (5'-D(*GP*AP*TP*GP*TP*GP*TP*AP*GP*CP*TP*AP*CP*AP*CP*AP*TP*C)-3')
Representative chains: C, D
Length: 18 nucleotides
Theoretical weight: 5.52 KDa
DNA (5'-D(*GP*AP*TP*GP*TP*GP*TP*AP*GP*CP*TP*AP*CP*AP*CP*AP*TP*C)-3') in PDB entry 5oqn, assembly 1, front view.
DNA (5'-D(*GP*AP*TP*GP*TP*GP*TP*AP*GP*CP*TP*AP*CP*AP*CP*AP*TP*C)-3') in PDB entry 5oqn, assembly 1, side view.
DNA (5'-D(*GP*AP*TP*GP*TP*GP*TP*AP*GP*CP*TP*AP*CP*AP*CP*AP*TP*C)-3') in PDB entry 5oqn, assembly 1, top view.
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