› 6tb4

Electron Microscopy
3.8Å resolution

Structure of SAGA bound to TBP

Released:
DOI: 10.2210/pdb6tb4/pdb
PDB entry 6tb4 coloured by chain, front view.
PDB entry 6tb4 coloured by chain, side view.
PDB entry 6tb4 coloured by chain, top view.
Source organism: Komagataella phaffii GS115
Primary publication:
Structure of SAGA and mechanism of TBP deposition on gene promoters.
Papai G, Frechard A, Kolesnikova O, Crucifix C, Schultz P, Ben-Shem A
Nature 577 711-716 (2020)
PMID: 31969704
Related structures: EMD-10438

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tridecamer (preferred)
PDBe Complex ID:
PDB-CPX-111374 (preferred)
Entry contents:
13 distinct polypeptide molecules
Macromolecules (13 distinct):
TATA-binding protein, general transcription factor Chain: M
Molecule details ›
Chain: M
Length: 243 amino acids
Theoretical weight: 26.93 KDa
Source organism: Komagataella phaffii GS115
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: C4QXP3 (Residues: 1-242; Coverage: 100%)
Gene name: PAS_chr1-4_0183
Sequence domains: Transcription factor TFIID (or TATA-binding protein, TBP)
Transcriptional coactivator HFI1/ADA1 Chain: A
Molecule details ›
Chain: A
Length: 448 amino acids
Theoretical weight: 49.89 KDa
Source organism: Komagataella phaffii GS115
UniProt:
  • Canonical: C4QZA3 (Residues: 1-448; Coverage: 100%)
Gene name: PAS_FragB_0044
Sequence domains: Transcriptional regulator of RNA polII, SAGA, subunit
SCA7 domain-containing protein Chain: C
Molecule details ›
Chain: C
Length: 698 amino acids
Theoretical weight: 80 KDa
Source organism: Komagataella phaffii GS115
UniProt:
  • Canonical: C4QZ39 (Residues: 1-644; Coverage: 100%)
Gene name: PAS_chr1-4_0651
Sequence domains: SCA7, zinc-binding domain
Spt20-like SEP domain-containing protein Chain: F
Molecule details ›
Chain: F
Length: 517 amino acids
Theoretical weight: 59.53 KDa
Source organism: Komagataella phaffii GS115
UniProt:
  • Canonical: C4QZ05 (Residues: 1-517; Coverage: 100%)
Gene name: PAS_chr1-4_0620
Sequence domains: Spt20, SEP domain
Subunit of the SAGA and SAGA-like transcriptional regulatory complexes, interacts with Spt15p to act Chain: D
Molecule details ›
Chain: D
Length: 341 amino acids
Theoretical weight: 39.03 KDa
Source organism: Komagataella phaffii GS115
UniProt:
  • Canonical: C4R3E4 (Residues: 1-341; Coverage: 100%)
Gene name: PAS_chr3_0051
Sequence domains: Transcription initiation factor IID, 18kD subunit
Bromo domain-containing protein Chain: E
Molecule details ›
Chain: E
Length: 1191 amino acids
Theoretical weight: 136.77 KDa
Source organism: Komagataella phaffii GS115
UniProt:
  • Canonical: C4R5C7 (Residues: 1-1191; Coverage: 100%)
Gene name: PAS_chr3_0713
Sequence domains: Bromodomain
Transcription initiation factor TFIID subunit 10 Chain: J
Molecule details ›
Chain: J
Length: 217 amino acids
Theoretical weight: 23.88 KDa
Source organism: Komagataella phaffii GS115
UniProt:
  • Canonical: C4QXP2 (Residues: 1-217; Coverage: 100%)
Gene name: PAS_chr1-4_0182
Sequence domains: Transcription initiation factor TFIID 23-30kDa subunit
Transcription initiation factor TFIID subunit 12 Chain: K
Molecule details ›
Chain: K
Length: 609 amino acids
Theoretical weight: 66.69 KDa
Source organism: Komagataella phaffii GS115
UniProt:
  • Canonical: C4R150 (Residues: 1-609; Coverage: 100%)
Gene name: PAS_chr2-1_0588
Sequence domains: Transcription initiation factor TFIID subunit A
Transcription initiation factor TFIID subunit 5 Chain: G
Molecule details ›
Chain: G
Length: 722 amino acids
Theoretical weight: 80.93 KDa
Source organism: Komagataella phaffii GS115
UniProt:
  • Canonical: C4R4L4 (Residues: 1-722; Coverage: 100%)
Gene name: PAS_chr3_0453
Sequence domains:
TATA box binding protein associated factor (TAF) histone-like fold domain-containing protein Chain: H
Molecule details ›
Chain: H
Length: 485 amino acids
Theoretical weight: 54.89 KDa
Source organism: Komagataella phaffii GS115
UniProt:
  • Canonical: C4QW33 (Residues: 1-485; Coverage: 100%)
Gene name: PAS_chr1-1_0095
Sequence domains:
Transcription initiation factor TFIID subunit 9 Chain: I
Molecule details ›
Chain: I
Length: 153 amino acids
Theoretical weight: 17.3 KDa
Source organism: Komagataella phaffii GS115
UniProt:
  • Canonical: C4QZS5 (Residues: 1-153; Coverage: 100%)
Gene name: PAS_chr2-1_0142
Sequence domains: Transcription initiation factor IID, 31kD subunit
Transcription-associated protein Chain: L
Molecule details ›
Chain: L
Length: 3825 amino acids
Theoretical weight: 438.06 KDa
Source organism: Komagataella phaffii GS115
UniProt:
  • Canonical: C4QYV4 (Residues: 1-3825; Coverage: 100%)
Gene name: PAS_chr1-4_0571
Sequence domains:
Transcriptional adapter 3 (Ada3) Chain: B
Molecule details ›
Chain: B
Length: 76 amino acids
Theoretical weight: 6.49 KDa
Source organism: Komagataella phaffii GS115

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.8Å
Relevant EMDB volumes: EMD-10438
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

15 review citations

Structure and mechanism of the RNA polymerase II transcription machinery.
Schier et al. (2020)
14 more

1 mention without citation

Structure of the human SAGA coactivator complex.
Herbst et al. (2021)