› 1nh2

X-ray diffraction
1.9Å resolution

Crystal structure of a yeast TFIIA/TBP/DNA complex

Released:
DOI: 10.2210/pdb1nh2/pdb
PDB entry 1nh2 coloured by chain, front view.
PDB entry 1nh2 coloured by chain, side view.
PDB entry 1nh2 coloured by chain, top view.
Source organism: Saccharomyces cerevisiae
Primary publication:
Novel interactions between the components of human and yeast TFIIA/TBP/DNA complexes.
Bleichenbacher M, Tan S, Richmond TJ
J Mol Biol 332 783-93 (2003)
PMID: 12972251

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-114249 (preferred)
Entry contents:
4 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (6 distinct):
TATA-box-binding protein Chain: A
Molecule details ›
Chain: A
Length: 180 amino acids
Theoretical weight: 20.12 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: P13393 (Residues: 61-240; Coverage: 75%)
Gene names: BTF1, SPT15, TBP1, YER148W
Sequence domains: Transcription factor TFIID (or TATA-binding protein, TBP)
Structure domains: TATA-Binding Protein
Transcription initiation factor IIA large subunit Chain: B
Molecule details ›
Chain: B
Length: 53 amino acids
Theoretical weight: 6.14 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: P32773 (Residues: 2-54; Coverage: 19%)
Gene names: TOA1, YOR194C
Structure domains: Helix Hairpins
Transcription initiation factor IIA large subunit Chain: C
Molecule details ›
Chain: C
Length: 79 amino acids
Theoretical weight: 8.92 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: P32773 (Residues: 210-286; Coverage: 27%)
Gene names: TOA1, YOR194C
Sequence domains: Transcription factor IIA, alpha/beta subunit
Structure domains: Transcription factor IIA (TFIIA), beta-barrel domain
Transcription initiation factor IIA subunit 2 Chain: D
Molecule details ›
Chain: D
Length: 121 amino acids
Theoretical weight: 13.34 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: P32774 (Residues: 2-122; Coverage: 99%)
Gene names: TOA2, YKL058W
Sequence domains:
Structure domains:
5'-D(*TP*GP*TP*AP*(5IU)P*GP*TP*AP*TP*AP*(5IU)P*AP*AP*AP*AP*C)-3' Chain: E
Molecule details ›
Chain: E
Length: 16 nucleotides
Theoretical weight: 5.14 KDa
5'-D(*GP*TP*TP*TP*TP*AP*TP*AP*TP*AP*CP*AP*TP*AP*CP*A)-3' Chain: F
Molecule details ›
Chain: F
Length: 16 nucleotides
Theoretical weight: 4.87 KDa

Ligands and Environments

No bound ligands
1 modified residue:
Ligand 5IU 2 x 5IU

Experiments and Validation Details

Entry percentile scores
X-ray source: EMBL/DESY, HAMBURG BEAMLINE X11
Spacegroup: P212121
Unit cell:
a: 59.01Å b: 92.02Å c: 117.017Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.204 0.201 0.226
Expression system: Escherichia coli

Quick links

Citations

9 review citations

Structural basis of transcription initiation by RNA polymerase II.
Sainsbury et al. (2015)
8 more

14 mentions without citation

Prediction of the general transcription factors associated with RNA polymerase II in Plasmodium falciparum: conserved features and differences relative to other eukaryotes.
Callebaut et al. (2005)
13 more