PDBe 5oik

Electron Microscopy
3.7Å resolution

Structure of an RNA polymerase II-DSIF transcription elongation complex

Released:
Source organisms:
Related structures: EMD-3817

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero 17-mer (preferred)
Entry contents:
14 distinct polypeptide molecules
2 distinct DNA molecules
1 distinct RNA molecule
Macromolecules (17 distinct):
DNA-directed RNA polymerase subunit Chain: A
DNA-directed RNA polymerase subunit beta Chain: B
Molecule details ›
Chain: B
Length: 1174 amino acids
Theoretical weight: 134.04 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: A5PJW8 (Residues: 1-1174; Coverage: 100%)
Gene name: POLR2B
Sequence domains:
DNA-directed RNA polymerase II subunit RPB3 Chain: C
Molecule details ›
Chain: C
Length: 275 amino acids
Theoretical weight: 31.47 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q3T0Q3 (Residues: 1-275; Coverage: 100%)
Gene name: POLR2C
Sequence domains:
Polymerase (RNA) II (DNA directed) polypeptide D Chain: D
Molecule details ›
Chain: D
Length: 142 amino acids
Theoretical weight: 16.35 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q1JQ91 (Residues: 1-142; Coverage: 100%)
Gene name: POLR2D
Sequence domains: RNA polymerase Rpb4
DNA-directed RNA polymerases I, II, and III subunit RPABC1 Chain: E
Molecule details ›
Chain: E
Length: 210 amino acids
Theoretical weight: 24.51 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q2T9T3 (Residues: 1-210; Coverage: 100%)
Gene name: POLR2E
Sequence domains:
DNA-directed RNA polymerases I, II, and III subunit RPABC2 Chain: F
Molecule details ›
Chain: F
Length: 127 amino acids
Theoretical weight: 14.49 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q32PE0 (Residues: 1-127; Coverage: 100%)
Gene name: POLR2F
Sequence domains: RNA polymerase Rpb6
DNA-directed RNA polymerase II subunit RPB7 Chain: G
Molecule details ›
Chain: G
Length: 172 amino acids
Theoretical weight: 19.31 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q5E9B8 (Residues: 1-172; Coverage: 100%)
Gene name: POLR2G
Sequence domains:
DNA-directed RNA polymerases I, II, and III subunit RPABC3 Chain: H
Molecule details ›
Chain: H
Length: 150 amino acids
Theoretical weight: 17.16 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: F2Z4H3 (Residues: 1-150; Coverage: 100%)
Gene name: POLR2H
Sequence domains: RNA polymerase Rpb8
DNA-directed RNA polymerase II subunit RPB9 Chain: I
Molecule details ›
Chain: I
Length: 125 amino acids
Theoretical weight: 14.51 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q32P73 (Residues: 1-125; Coverage: 100%)
Gene name: POLR2I
Sequence domains:
DNA-directed RNA polymerases I, II, and III subunit RPABC5 Chain: J
Molecule details ›
Chain: J
Length: 67 amino acids
Theoretical weight: 7.66 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q32P78 (Residues: 1-67; Coverage: 100%)
Gene name: POLR2L
Sequence domains: RNA polymerases N / 8 kDa subunit
DNA-directed RNA polymerase II subunit RPB11 Chain: K
Molecule details ›
Chain: K
Length: 117 amino acids
Theoretical weight: 13.31 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q32P79 (Residues: 1-117; Coverage: 100%)
Gene name: POLR2J
Sequence domains: RNA polymerase Rpb3/Rpb11 dimerisation domain
DNA-directed RNA polymerases I, II, and III subunit RPABC4 Chain: L
Molecule details ›
Chain: L
Length: 58 amino acids
Theoretical weight: 7.02 KDa
Source organism: Bos taurus
UniProt:
  • Canonical: Q3ZBC0 (Residues: 1-58; Coverage: 100%)
Gene name: POLR2K
Sequence domains: DNA directed RNA polymerase, 7 kDa subunit
Transcription elongation factor SPT4 Chain: Y
Molecule details ›
Chain: Y
Length: 117 amino acids
Theoretical weight: 13.21 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P63272 (Residues: 1-117; Coverage: 100%)
Gene names: SPT4H, SUPT4H, SUPT4H1
Sequence domains: Spt4/RpoE2 zinc finger
Transcription elongation factor SPT5 Chain: Z
Molecule details ›
Chain: Z
Length: 1087 amino acids
Theoretical weight: 121.15 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O00267 (Residues: 1-1087; Coverage: 100%)
Gene names: SPT5, SPT5H, SUPT5H
Sequence domains:
DNA (43-MER) Chain: N
Molecule details ›
Chain: N
Length: 43 nucleotides
Theoretical weight: 13.3 KDa
DNA (43-MER) Chain: T
Molecule details ›
Chain: T
Length: 43 nucleotides
Theoretical weight: 13.18 KDa
RNA (5'-R(P*UP*AP*UP*AP*UP*AP*CP*AP*UP*AP*AP*AP*GP*AP*CP*CP*AP*GP*GP*C)-3') Chain: P
Molecule details ›
Chain: P
Length: 50 nucleotides
Theoretical weight: 16.08 KDa

Ligands and Environments

2 bound ligands:

No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.7Å
Relevant EMDB volumes: EMD-3817
Expression system: Escherichia coli BL21(DE3)