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5OQM: STRUCTURE OF YEAST TRANSCRIPTION PRE-INITIATION COMPLEX WITH TFIIH AND CORE MEDIATOR

PDB ID:

5OQM Download

MMDB ID:

161790

PDB Deposition Date:

2017/8/13

Updated in MMDB:

2022/11

Experimental Method:

electron microscopy

Resolution:

5.8 Å

Source Organism:

Saccharomyces cerevisiae S288C▼

Taxonomy	Molecule
Saccharomyces cerevisiae S288C	A, B, C, D, E, F, G, H, I, J, K, L, M, O, R, U, V, X, 0, 1, 2, 3, 4, 5, 6, 7, Z, a, b, c, d, e, f, g , h, i, j, k, l, m, n, o
synthetic construct	N, Q, T, W

Similar Structures:

Biological Unit for 5OQM: 46-meric; determined by author

Molecular Components in 5OQM
Label	Count	Molecule
Proteins (44 molecules)
A	1	DNA-directed RNA Polymerase II Subunit Rpb1
B	1	DNA-directed RNA Polymerase II Subunit Rpb2
C	1	DNA-directed RNA Polymerase II Subunit Rpb3
D	1	DNA-directed RNA Polymerase II Subunit Rpb4
E	1	DNA-directed RNA Polymerases I, II, and III Subunit Rpabc1
F	1	DNA-directed RNA Polymerases I, II, and III Subunit Rpabc2
G	1	DNA-directed RNA Polymerase II Subunit Rpb7
H	1	DNA-directed RNA Polymerases I, II, and III Subunit Rpabc3
I	1	DNA-directed RNA Polymerase II Subunit Rpb9
J	1	DNA-directed RNA Polymerases I, II, and III Subunit Rpabc5
K	1	DNA-directed RNA Polymerase II Subunit Rpb11
L	1	DNA-directed RNA Polymerases I, II, and III Subunit Rpabc4
M	1	Transcription Initiation Factor IIB
O	1	Tata-box-binding Protein
Q	1	Transcription Initiation Factor IIF Subunit Alpha
R	1	Transcription Initiation Factor IIF Subunit Beta
U	1	Transcription Initiation Factor IIA Large Subunit
V	1	Transcription Initiation Factor IIA Subunit 2
W	1	Transcription Factor Tfiie Subunit
X	1	Transcription Initiation Factor IIE Subunit Beta
0	1	General Transcription and DNA Repair Factor IIH Helicase Subunit XPD
1	1	General Transcription and DNA Repair Factor IIH Subunit Tfb1
2	1	General Transcription and DNA Repair Factor IIH Subunit Tfb2
3	1	RNA Polymerase II Transcription Factor B Subunit 3
4	1	General Transcription and DNA Repair Factor IIH Subunit Tfb4
5	1	General Transcription and DNA Repair Factor IIH Subunit Tfb5
6	1	General Transcription and DNA Repair Factor IIH Subunit Ssl1
7	1	General Transcription and DNA Repair Factor IIH Helicase Subunit XPB
Z	1	Unknown Protein
a	1	Mediator of RNA Polymerase II Transcription Subunit 6
b	1	Mediator of RNA Polymerase II Transcription Subunit 8
c	1	Mediator of RNA Polymerase II Transcription Subunit 11
d	1	Mediator of RNA Polymerase II Transcription Subunit 17
e	1	Mediator of RNA Polymerase II Transcription Subunit 18
f	1	Mediator of RNA Polymerase II Transcription Subunit 20
g	1	Mediator of RNA Polymerase II Transcription Subunit 22
h	1	Mediator of RNA Polymerase II Transcription Subunit 4
i	1	Mediator of RNA Polymerase II Transcription Subunit 7
j	1	Mediator of RNA Polymerase II Transcription Subunit 9
k	1	Mediator of RNA Polymerase II Transcription Subunit 10
l	1	Mediator of RNA Polymerase II Transcription Subunit 14
m	1	Mediator of RNA Polymerase II Transcription Subunit 19
n	1	Mediator of RNA Polymerase II Transcription Subunit 21
o	1	Mediator of RNA Polymerase II Transcription Subunit 31,mediator of RNA Polymerase II Transcription Subunit 31
Nucleotides(2 molecules)
N	1	Nontemplate DNA
T	1	Template DNA
Chemicals and Non-standard biopolymers (18 molecules)
1	16	ZINC ION (Link to PubChem not yet available)
2	1	MAGNESIUM ION (Link to PubChem not yet available)
3	1	IRON/SULFUR CLUSTER (Link to PubChem not yet available)

* 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