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Structure of the SCL:E47 complex bound to DNA

X-ray diffraction
2.87Å resolution
PDB 2ypb coloured by chain and viewed from the front.
PDB 2ypb coloured by chain and viewed from the side.
PDB 2ypb coloured by chain and viewed from the top.
Source organism: Homo sapiens
Assembly composition:
hetero tetramer (preferred)
Entry contents: 2 distinct polypeptide molecules
2 distinct DNA molecules

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Assemblies

Assembly 1 (preferred)
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Multimeric state: hetero tetramer
Accessible surface area: 12900 Å2
Buried surface area: 5500 Å2
Dissociation area: 1,200 Å2
Dissociation energy (ΔGdiss): 18 kcal/mol
Dissociation entropy (TΔSdiss): 11 kcal/mol
Interface energy (ΔGint): -54 kcal/mol
Symmetry number: 1

Macromolecules

T-cell acute lymphocytic leukemia protein 1
Chain: A
Length: 91 amino acids
Theoretical weight: 10.72 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P17542 (Residues: 180-253; Coverage: 22%)
Gene names: BHLHA17, SCL, TAL1, TCL5
Pfam: Helix-loop-helix DNA-binding domain
InterPro:
CATH: Helix-loop-helix DNA-binding domain
PDB 2ypb contains 1 copy of T-cell acute lymphocytic leukemia protein 1 in assembly 1. This protein is highlighted and viewed from the front.
PDB 2ypb contains 1 copy of T-cell acute lymphocytic leukemia protein 1 in assembly 1. This protein is highlighted and viewed from the side.
PDB 2ypb contains 1 copy of T-cell acute lymphocytic leukemia protein 1 in assembly 1. This protein is highlighted and viewed from the top.
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Transcription factor E2-alpha
Chain: B
Length: 82 amino acids
Theoretical weight: 9.67 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P15923 (Residues: 538-616; Coverage: 12%)
  • Best match: P15923-2 (Residues: 535-613)
Gene names: BHLHB21, E2A, ITF1, TCF3
Pfam: Helix-loop-helix DNA-binding domain
InterPro:
CATH: Helix-loop-helix DNA-binding domain
PDB 2ypb contains 1 copy of Transcription factor E2-alpha in assembly 1. This protein is highlighted and viewed from the front.
PDB 2ypb contains 1 copy of Transcription factor E2-alpha in assembly 1. This protein is highlighted and viewed from the side.
PDB 2ypb contains 1 copy of Transcription factor E2-alpha in assembly 1. This protein is highlighted and viewed from the top.
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DNA chain E
Name: EBOX FORWARD
Representative chains: E
Length: 11 nucleotides
Theoretical weight: 3.28 KDa
PDB 2ypb contains 1 copy of EBOX FORWARD in assembly 1. This DNA molecule is highlighted and viewed from the front.
PDB 2ypb contains 1 copy of EBOX FORWARD in assembly 1. This DNA molecule is highlighted and viewed from the side.
PDB 2ypb contains 1 copy of EBOX FORWARD in assembly 1. This DNA molecule is highlighted and viewed from the top.
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DNA chain F
Name: EBOX REVERSE
Representative chains: F
Length: 11 nucleotides
Theoretical weight: 3.42 KDa
PDB 2ypb contains 1 copy of EBOX REVERSE in assembly 1. This DNA molecule is highlighted and viewed from the front.
PDB 2ypb contains 1 copy of EBOX REVERSE in assembly 1. This DNA molecule is highlighted and viewed from the side.
PDB 2ypb contains 1 copy of EBOX REVERSE in assembly 1. This DNA molecule is highlighted and viewed from the top.
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