› 9eh0

Electron Microscopy
3.6Å resolution

RNA polymerase II-DSIF-SPT6-PAF1c-TFIIS-IWS1-SETD2-nucleosome, 30 bp upstream

Released:
DOI: 10.2210/pdb9eh0/pdb
PDB entry 9eh0 coloured by chain, front view.
PDB entry 9eh0 coloured by chain, side view.
PDB entry 9eh0 coloured by chain, top view.
Source organisms:
Primary publication:
Structural basis of H3K36 trimethylation by SETD2 during chromatin transcription.
Markert JW, Soffers JH, Farnung L
Science eadn6319 (2024)
PMID: 39666822
Related structures: EMD-48042

Function and Biology Details

Reactions catalysed: 
Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1)
(1a) S-adenosyl-L-methionine + a [histone H3]-L-lysine(36) = S-adenosyl-L-homocysteine + a [histone H3]-N(6)-methyl-L-lysine(36)
Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero 35-mer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-285742 (preferred)
Entry contents:
28 distinct polypeptide molecules
2 distinct DNA molecules
1 distinct RNA molecule
Macromolecules (31 distinct):
DNA-directed RNA polymerase subunit Chain: A
Molecule details ›
Chain: A
Length: 1984 amino acids
Theoretical weight: 219.05 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: A0A7M4DUC2 (Residues: 1-1984; Coverage: 100%)
Sequence domains:
DNA-directed RNA polymerase subunit beta Chain: B
Molecule details ›
Chain: B
Length: 1251 amino acids
Theoretical weight: 142.43 KDa
Source organism: Sus scrofa
UniProt:
  • Canonical: A0A0B8RVL1 (Residues: 1-1174; Coverage: 100%)
Gene name: POLR2B
Sequence domains:
DNA-directed RNA polymerase RpoA/D/Rpb3-type domain-containing protein Chain: C
RNA polymerase Rpb4/RPC9 core domain-containing protein Chain: D
DNA-directed RNA polymerase II subunit E Chain: E
DNA-directed RNA polymerases I, II, and III subunit RPABC2 Chain: F
DNA-directed RNA polymerase subunit Chain: G
DNA-directed RNA polymerases I, II, and III subunit RPABC3 Chain: H
DNA-directed RNA polymerase II subunit RPB9 Chain: I
DNA-directed RNA polymerases I, II, and III subunit RPABC5 Chain: J
DNA-directed RNA polymerase RBP11-like dimerisation domain-containing protein Chain: K
RNA polymerase II, I and III subunit K Chain: L
Transcription elongation factor SPT6 Chain: M
Protein IWS1 homolog Chain: O
RNA polymerase-associated protein CTR9 homolog Chain: Q
RNA polymerase-associated protein RTF1 homolog Chain: R
Transcription elongation factor A protein 1 Chain: S
RNA polymerase-associated protein LEO1 Chain: U
RNA polymerase II-associated factor 1 homolog Chain: V
Superkiller complex protein 8 Chain: W
Parafibromin Chain: X
Transcription elongation factor SPT4 Chain: Y
Transcription elongation factor SPT5 Chain: Z
Histone H3 Chains: a, e
Histone H4 Chains: b, f
Histone H2A type 1 Chains: c, g
Histone H2B 1.1 Chains: d, h
Histone-lysine N-methyltransferase SETD2 Chain: l
Non-template Chain: N
Template DNA Chain: T
RNA Chain: P

Ligands and Environments

2 bound ligands:
Ligand ZN 9 x ZN
Ligand MG 1 x MG
2 modified residues:
Ligand TPO 2 x TPO
Ligand SEP 1 x SEP

Experiments and Validation Details

wwPDB Validation report is not available for this EM entry.
Resolution: 3.6Å
Relevant EMDB volumes: EMD-48042
Expression systems:
  • Trichoplusia ni
  • Escherichia coli

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