› 1ngm

X-ray diffraction
2.95Å resolution

Crystal structure of a yeast Brf1-TBP-DNA ternary complex

Released:
DOI: 10.2210/pdb1ngm/pdb
PDB entry 1ngm coloured by chain, front view.
PDB entry 1ngm coloured by chain, side view.
PDB entry 1ngm coloured by chain, top view.
Source organism: Saccharomyces cerevisiae
Primary publication:
Crystal structure of a transcription factor IIIB core interface ternary complex.
Juo ZS, Kassavetis GA, Wang J, Geiduschek EP, Sigler PB
Nature 422 534-9 (2003)
PMID: 12660736

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-506300 (preferred)
Entry contents:
2 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (4 distinct):
TATA-box-binding protein Chains: A, E, I, M
Molecule details ›
Chains: A, E, I, M
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 factor IIIB 70 kDa subunit Chains: B, F, J, N
Molecule details ›
Chains: B, F, J, N
Length: 72 amino acids
Theoretical weight: 8.34 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: P29056 (Residues: 437-506; Coverage: 12%)
Gene names: BRF1, PCF4, TDS4, YGR246C
Sequence domains: Brf1-like TBP-binding domain
Structure domains: Single helix bin
5'-D(*CP*TP*AP*TP*AP*AP*AP*AP*AP*AP*AP*TP*GP*TP*TP*TP*TP*TP*T)-3' Chains: C, G, K, O
Molecule details ›
Chains: C, G, K, O
Length: 19 nucleotides
Theoretical weight: 5.82 KDa
5'-D(*AP*AP*AP*AP*AP*AP*CP*AP*TP*TP*TP*TP*TP*TP*TP*AP*TP*AP*G)-3' Chains: D, H, L, P
Molecule details ›
Chains: D, H, L, P
Length: 19 nucleotides
Theoretical weight: 5.83 KDa

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X25
Spacegroup: P21212
Unit cell:
a: 93.61Å b: 152.6Å c: 256.638Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.278 0.276 0.308
Expression system: Escherichia coli

Quick links

Citations

9 review citations

Conservation between the RNA polymerase I, II, and III transcription initiation machineries.
Vannini et al. (2012)
8 more

11 mentions without citation

TFIIB-related factors in RNA polymerase I transcription.
Knutson et al. (2013)
10 more