3S2D: RNA Polymerase II Initiation Complex with a 5-nt RNA containing a 5Br-U

PDB ID: 3S2DDownload
MMDB ID: 92593
PDB Deposition Date: 2011/5/16
Updated in MMDB: 2017/11
Experimental Method:
x-ray diffraction
Resolution: 3.2  Å
Source Organism:
Saccharomyces cerevisiae S288C▼
Similar Structures:
Biological Unit for 3S2D: dodecameric; determined by author and by software (PISA)
Molecular Components in 3S2D
Label Count Molecule
Proteins (10 molecules)
1
DNA-directed RNA Polymerase II Subunit Rpb1
Molecule annotation
1
DNA-directed RNA Polymerase II Subunit Rpb2
Molecule annotation
1
DNA-directed RNA Polymerase II Subunit Rpb3
Molecule annotation
1
DNA-directed RNA Polymerases I, II, and III Subunit Rpabc1
Molecule annotation
1
DNA-directed RNA Polymerases I, II, and III Subunit Rpabc2
Molecule annotation
1
DNA-directed RNA Polymerases I, II, and III Subunit Rpabc3
Molecule annotation
1
DNA-directed RNA Polymerase II Subunit Rpb9
Molecule annotation
1
DNA-directed RNA Polymerases I, II, and III Subunit Rpabc5
Molecule annotation
1
DNA-directed RNA Polymerase II Subunit Rpb11
Molecule annotation
1
DNA-directed RNA Polymerases I, II, and III Subunit Rpabc4
Molecule annotation
Nucleotides(2 molecules)
1
RNA (5'-r(*ap*gp*gp*(5bu)p*g)-3')
Molecule annotation
1
DNA (5'-d(*cp*tp*ap*cp*cp*gp*ap*tp*ap*ap*gp*cp*ap*gp*ap*cp*gp*ap*tp*cp*ap*cp*cp*tp*cp*gp*ap*tp*g)-3')
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