8JH4: RNA polymerase II elongation complex containing 60 bp upstream DNA loop, stalled at SHL(-1) of the nucleosome

PDB ID: 8JH4Download
MMDB ID: 239170
PDB Deposition Date: 2023/5/22
Updated in MMDB: 2023/12
Experimental Method:
electron microscopy
Resolution: 3.2  Å
Source Organism:
Komagataella phaffii▼
Similar Structures:
Biological Unit for 8JH4: 23-meric; determined by author and by software
Molecular Components in 8JH4
Label Count Molecule
Proteins (20 molecules)
1
DNA-directed RNA Polymerase Subunit
Molecule annotation
1
DNA-directed RNA Polymerase Subunit Beta
Molecule annotation
1
RNA Polymerase II Third Largest Subunit B44, Part of Central Core
Molecule annotation
1
RNA Polymerase II Subunit B32
Molecule annotation
1
DNA-directed RNA Polymerases I, II, and III Subunit Rpabc1
Molecule annotation
1
RNA Polymerase Subunit Abc23, Common to RNA Polymerases I, II, and III
Molecule annotation
1
RNA Polymerase II Subunit
Molecule annotation
1
DNA-directed RNA Polymerases I, II, and III Subunit Rpabc3
Molecule annotation
1
DNA-directed RNA Polymerase Subunit
Molecule annotation
1
RNA Polymerase Subunit Abc10-beta, Common to RNA Polymerases I, II, and III
Molecule annotation
1
RNA Polymerase II Subunit B12.5
Molecule annotation
1
RNA Polymerase Subunit Abc10-alpha
Molecule annotation
2
Histone H3.3
Molecule annotation
2
Histone H4
Molecule annotation
2
Histone H2A Type 1-b/e
Molecule annotation
2
Histone H2B Type 1-J
Molecule annotation
Nucleotides(3 molecules)
1
DNA (198-mer)
Molecule annotation
1
RNA (5'-r(p*gp*up*cp*up*up*gp*gp*gp*up*gp)-3')
Molecule annotation
1
DNA (198-mer)
Molecule annotation
Chemicals and Non-standard biopolymers (9 molecules)
1
8
ZINC IONZINC ION
2
1
MAGNESIUM IONMAGNESIUM ION
* Click molecule labels to explore molecular sequence information.
Citing MMDB
Madej T, Lanczycki CJ, Zhang D, Thiessen PA, Geer RC, Marchler-Bauer A, Bryant SH. " MMDB and VAST+: tracking structural similarities between macromolecular complexes. Nucleic Acids Res. 2014 Jan; 42(Database issue):D297-303