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Structure of human TFIID-IIA bound to core promoter DNA

Electron Microscopy
8.5Å resolution
PDB entry 5fur coloured by chain, front view.
PDB entry 5fur coloured by chain, side view.
PDB entry 5fur coloured by chain, top view.
Source organism: Homo sapiens
Assembly composition:
hetero dodecamer (preferred)
Entry contents: 9 distinct polypeptide molecules
2 distinct DNA molecules

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Assemblies

Assembly 1 (preferred)
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Assembly Name: General transcription factor complex TFIIA and DNA
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Multimeric state: hetero dodecamer
Accessible surface area: 137734.23 Å2
Buried surface area: 31720.93 Å2
Dissociation area: 3,891.43 Å2
Dissociation energy (ΔGdiss): -51.86 kcal/mol
Dissociation entropy (TΔSdiss): 82.1 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-118689

Macromolecules

TATA-box-binding protein
Chain: A
Length: 339 amino acids
Theoretical weight: 37.73 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P20226 (Residues: 1-339; Coverage: 100%)
Gene names: GTF2D1, TBP, TF2D, TFIID
Pfam: Transcription factor TFIID (or TATA-binding protein, TBP)
InterPro:
TATA-box-binding protein in PDB entry 5fur, assembly 1, front view.
TATA-box-binding protein in PDB entry 5fur, assembly 1, side view.
TATA-box-binding protein in PDB entry 5fur, assembly 1, top view.
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Transcription initiation factor IIA alpha chain
Chain: B
Length: 43 amino acids
Theoretical weight: 5.1 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P52655 (Residues: 9-51; Coverage: 11%)
Gene names: GTF2A1, TF2A1
InterPro: Transcription factor IIA, alpha/beta subunit
Transcription initiation factor IIA alpha chain in PDB entry 5fur, assembly 1, front view.
Transcription initiation factor IIA alpha chain in PDB entry 5fur, assembly 1, side view.
Transcription initiation factor IIA alpha chain in PDB entry 5fur, assembly 1, top view.
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Transcription initiation factor IIA beta chain
Chain: C
Length: 47 amino acids
Theoretical weight: 5.59 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P52655 (Residues: 330-376; Coverage: 13%)
Gene names: GTF2A1, TF2A1
Pfam: Transcription factor IIA, alpha/beta subunit
InterPro:
Transcription initiation factor IIA beta chain in PDB entry 5fur, assembly 1, front view.
Transcription initiation factor IIA beta chain in PDB entry 5fur, assembly 1, side view.
Transcription initiation factor IIA beta chain in PDB entry 5fur, assembly 1, top view.
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Transcription initiation factor IIA subunit 2
Chain: D
Length: 97 amino acids
Theoretical weight: 11.28 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P52657 (Residues: 3-99; Coverage: 89%)
Gene names: GTF2A2, TF2A2
Pfam:
InterPro:
Transcription initiation factor IIA subunit 2 in PDB entry 5fur, assembly 1, front view.
Transcription initiation factor IIA subunit 2 in PDB entry 5fur, assembly 1, side view.
Transcription initiation factor IIA subunit 2 in PDB entry 5fur, assembly 1, top view.
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Transcription initiation factor TFIID subunit 1
Chain: G
Length: 1893 amino acids
Theoretical weight: 215.15 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P21675 (Residues: 1-177, 199-1893; Coverage: 99%)
Gene names: BA2R, CCG1, CCGS, TAF1, TAF2A
Pfam:
InterPro:
Transcription initiation factor TFIID subunit 1 in PDB entry 5fur, assembly 1, front view.
Transcription initiation factor TFIID subunit 1 in PDB entry 5fur, assembly 1, side view.
Transcription initiation factor TFIID subunit 1 in PDB entry 5fur, assembly 1, top view.
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Transcription initiation factor TFIID subunit 7
Chain: H
Length: 349 amino acids
Theoretical weight: 40.33 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q15545 (Residues: 1-349; Coverage: 100%)
Gene names: TAF2F, TAF7, TAFII55
Pfam: TAFII55 protein conserved region
InterPro:
Transcription initiation factor TFIID subunit 7 in PDB entry 5fur, assembly 1, front view.
Transcription initiation factor TFIID subunit 7 in PDB entry 5fur, assembly 1, side view.
Transcription initiation factor TFIID subunit 7 in PDB entry 5fur, assembly 1, top view.
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Transcription initiation factor TFIID subunit 2
Chain: I
Length: 1199 amino acids
Theoretical weight: 137.16 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q6P1X5 (Residues: 1-1199; Coverage: 100%)
Gene names: CIF150, TAF2, TAF2B
InterPro:
Transcription initiation factor TFIID subunit 2 in PDB entry 5fur, assembly 1, front view.
Transcription initiation factor TFIID subunit 2 in PDB entry 5fur, assembly 1, side view.
Transcription initiation factor TFIID subunit 2 in PDB entry 5fur, assembly 1, top view.
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Transcription initiation factor TFIID subunit 6
Chains: J, K
Length: 677 amino acids
Theoretical weight: 72.75 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P49848 (Residues: 1-677; Coverage: 100%)
Gene names: TAF2E, TAF6, TAFII70
Pfam:
InterPro:
Transcription initiation factor TFIID subunit 6 in PDB entry 5fur, assembly 1, front view.
Transcription initiation factor TFIID subunit 6 in PDB entry 5fur, assembly 1, side view.
Transcription initiation factor TFIID subunit 6 in PDB entry 5fur, assembly 1, top view.
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Transcription initiation factor TFIID subunit 8
Chain: L
Length: 310 amino acids
Theoretical weight: 34.3 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q7Z7C8 (Residues: 1-310; Coverage: 100%)
Gene names: TAF8, TAFII43, TBN
Pfam:
InterPro:
Transcription initiation factor TFIID subunit 8 in PDB entry 5fur, assembly 1, front view.
Transcription initiation factor TFIID subunit 8 in PDB entry 5fur, assembly 1, side view.
Transcription initiation factor TFIID subunit 8 in PDB entry 5fur, assembly 1, top view.
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DNA chain E
Name: SUPER CORE PROMOTER
Representative chains: E
Length: 89 nucleotides
Theoretical weight: 27.66 KDa
SUPER CORE PROMOTER in PDB entry 5fur, assembly 1, front view.
SUPER CORE PROMOTER in PDB entry 5fur, assembly 1, side view.
SUPER CORE PROMOTER in PDB entry 5fur, assembly 1, top view.
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DNA chain F
Name: SUPER CORE PROMOTER
Representative chains: F
Length: 93 nucleotides
Theoretical weight: 28.49 KDa
SUPER CORE PROMOTER in PDB entry 5fur, assembly 1, front view.
SUPER CORE PROMOTER in PDB entry 5fur, assembly 1, side view.
SUPER CORE PROMOTER in PDB entry 5fur, assembly 1, top view.
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