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CRYSTAL STRUCTURE OF THE ORPHAN NUCLEAR RECEPTOR REV-ERB(ALPHA) DNA-BINDING DOMAIN BOUND TO ITS COGNATE RESPONSE ELEMENT

X-ray diffraction
2.4Å resolution
PDB entry 1ga5 coloured by chain, front view.
PDB entry 1ga5 coloured by chain, side view.
PDB entry 1ga5 coloured by chain, top view.
Source organism: Homo sapiens
Assembly composition:
hetero tetramer (preferred)
Entry contents: 1 distinct polypeptide molecule
2 distinct DNA molecules

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Assemblies

Assembly 1 (preferred)
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Assembly Name: Nuclear receptor subfamily 1 group D member 1 and DNA
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Multimeric state: hetero tetramer
Accessible surface area: 13421.81 Å2
Buried surface area: 6973.09 Å2
Dissociation area: 1,286.57 Å2
Dissociation energy (ΔGdiss): 10.62 kcal/mol
Dissociation entropy (TΔSdiss): 11.2 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-113860
Assembly 2
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Assembly Name: Nuclear receptor subfamily 1 group D member 1 and DNA
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Multimeric state: hetero tetramer
Accessible surface area: 13060.2 Å2
Buried surface area: 6817.25 Å2
Dissociation area: 1,300.21 Å2
Dissociation energy (ΔGdiss): 13.1 kcal/mol
Dissociation entropy (TΔSdiss): 11.18 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-113860

Macromolecules

Nuclear receptor subfamily 1 group D member 1
Chains: A, B, E, F
Length: 94 amino acids
Theoretical weight: 10.9 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P20393 (Residues: 123-216; Coverage: 15%)
Gene names: EAR1, HREV, NR1D1, THRAL
Pfam: Zinc finger, C4 type (two domains)
InterPro:
CATH: Erythroid Transcription Factor GATA-1, subunit A
SCOP: Nuclear receptor
Nuclear receptor subfamily 1 group D member 1 in PDB entry 1ga5, assembly 1, front view.
Nuclear receptor subfamily 1 group D member 1 in PDB entry 1ga5, assembly 1, side view.
Nuclear receptor subfamily 1 group D member 1 in PDB entry 1ga5, assembly 1, top view.
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DNA chains C, G
Name: 5'-D(*CP*AP*AP*CP*TP*AP*GP*GP*TP*CP*AP*CP*TP*AP*GP*GP*TP*CP*AP*G)-3'
Representative chains: C, G
Source organism: Homo sapiens [9606]
Expression system: Not provided
Length: 20 nucleotides
Theoretical weight: 6.14 KDa
5'-D(*CP*AP*AP*CP*TP*AP*GP*GP*TP*CP*AP*CP*TP*AP*GP*GP*TP*CP*AP*G)-3' in PDB entry 1ga5, assembly 1, front view.
5'-D(*CP*AP*AP*CP*TP*AP*GP*GP*TP*CP*AP*CP*TP*AP*GP*GP*TP*CP*AP*G)-3' in PDB entry 1ga5, assembly 1, side view.
5'-D(*CP*AP*AP*CP*TP*AP*GP*GP*TP*CP*AP*CP*TP*AP*GP*GP*TP*CP*AP*G)-3' in PDB entry 1ga5, assembly 1, top view.
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DNA chains D, H
Name: 5'-D(*CP*TP*GP*AP*CP*CP*TP*AP*GP*TP*GP*AP*CP*CP*TP*AP*GP*TP*(5IT)P*G)-3'
Representative chains: D, H
Source organism: Homo sapiens [9606]
Expression system: Not provided
Length: 20 nucleotides
Theoretical weight: 6.24 KDa
5'-D(*CP*TP*GP*AP*CP*CP*TP*AP*GP*TP*GP*AP*CP*CP*TP*AP*GP*TP*(5IT)P*G)-3' in PDB entry 1ga5, assembly 1, front view.
5'-D(*CP*TP*GP*AP*CP*CP*TP*AP*GP*TP*GP*AP*CP*CP*TP*AP*GP*TP*(5IT)P*G)-3' in PDB entry 1ga5, assembly 1, side view.
5'-D(*CP*TP*GP*AP*CP*CP*TP*AP*GP*TP*GP*AP*CP*CP*TP*AP*GP*TP*(5IT)P*G)-3' in PDB entry 1ga5, assembly 1, top view.
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