Brand  (β version)

PDB ID: 3GTM

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Ligands
Code Name Style Show Link
MG Magnesium ion PoSSuM
ZN Zinc ion PoSSuM
Non-standard Residues
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Glycosylation
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Structure summary

Code : 3GTM   PDBj   RCSB PDB   PDBe
Header : TRANSCRIPTION, TRANSFERASE/DNA-RNA HYBRID
Title : Co-complex of Backtracked RNA polymerase II with TFIIS
Release Data : 2009-06-09
Compound :
mol_id molecule chains synonym
1 DNA-directed RNA polymerase II subunit RPB1 A RNA polymerase II subunit B1,DNA-directed RNA polymerase III largest subunit,RNA polymerase II subunit B220
ec: 2.7.7.6
fragment: DNA-directed RNA polymerase II largest subunit
mol_id molecule chains synonym
2 DNA-directed RNA polymerase II subunit RPB2 B RNA polymerase II subunit 2,B150,DNA-directed RNA polymerase II 140 kDa polypeptide
ec: 2.7.7.6
fragment: DNA-directed RNA polymerase II 140 kDa polypeptide
mol_id molecule chains
3 DNA-directed RNA polymerase II subunit RPB3 C
fragment: DNA-directed RNA polymerase II 45 kDa polypeptide
mol_id molecule chains
4 DNA-directed RNA polymerases I, II, and III subunit RPABC1 E
fragment: DNA-directed RNA polymerases I, II, and III 27 kDa polypeptide
mol_id molecule chains
5 DNA-directed RNA polymerases I, II, and III subunit RPABC2 F
fragment: DNA-directed RNA polymerases I, II, and III 23 kDa polypeptide
mol_id molecule chains synonym
6 DNA-directed RNA polymerases I, II, and III subunit RPABC3 H RNA polymerases I,II,and III subunit ABC3,ABC14.4,ABC14.5,DNA-directed RNA polymerases I,and III 14.5 kDa polypeptide
fragment: DNA-directed RNA polymerases I, II, and III 14.5 kDa polypeptide
mol_id molecule chains synonym
7 DNA-directed RNA polymerase II subunit RPB9 I RNA polymerase II subunit B9,B12.6,DNA-directed RNA polymerase II 14.2 kDa polypeptide,DNA-directed RNA polymerase II subunit 9
fragment: DNA-directed RNA polymerase II subunit 9
mol_id molecule chains synonym
8 DNA-directed RNA polymerases I, II, and III subunit RPABC5 J RNA polymerases I,II,and III subunit ABC5,ABC10-beta,ABC8,DNA-directed RNA polymerases I,and III 8.3 kDa polypeptide
fragment: DNA-directed RNA polymerases I/II/III subunit 10
mol_id molecule chains synonym
9 DNA-directed RNA polymerase II subunit RPB11 K RNA polymerase II subunit B11,B13.6,DNA-directed RNA polymerase II 13.6 kDa polypeptide
fragment: DNA-directed RNA polymerase II 13.6 kDa polypeptide
mol_id molecule chains synonym
10 DNA-directed RNA polymerases I, II, and III subunit RPABC4 L RNA polymerases I,II,and III subunit ABC4,ABC10-alpha
fragment: DNA-directed RNA polymerases I, II, and III 7.7 kDa polypeptide
mol_id molecule chains synonym
11 Transcription elongation factor S-II S DNA strand transfer protein alpha,STP-alpha,DNA strand transferase 1,Pyrimidine pathway regulatory protein 2
fragment: Transcription Factor IIS E291H mutation, UNP residues 147-309
mutation: E291H
mol_id molecule chains
12 RNA (5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*AP*UP*GP*C)-3') M
fragment: RNA strand
other_details: RNA strand
mol_id molecule chains
13 DNA (28-MER) N
fragment: DNA template strand
other_details: DNA template strand
mol_id molecule chains
14 DNA (5'-D(*CP*TP*GP*CP*TP*TP*AP*TP*CP*GP*GP*TP*AP*G)-3') O
fragment: DNA non-template strand
other_details: DNA non-template strand
Source :
mol_id organism_scientific organism_common
1 Saccharomyces cerevisiae (strain ATCC 204508 / S288c)  (taxid:559292) Baker's yeast
strain: ATCC 204508 / S288c
mol_id organism_scientific organism_common
2 Saccharomyces cerevisiae (strain ATCC 204508 / S288c)  (taxid:559292) Baker's yeast
strain: ATCC 204508 / S288c
mol_id organism_scientific organism_common
3 Saccharomyces cerevisiae (strain ATCC 204508 / S288c)  (taxid:559292) Baker's yeast
strain: ATCC 204508 / S288c
mol_id organism_scientific organism_common
4 Saccharomyces cerevisiae (strain ATCC 204508 / S288c)  (taxid:559292) Baker's yeast
strain: ATCC 204508 / S288c
mol_id organism_scientific organism_common
5 Saccharomyces cerevisiae (strain ATCC 204508 / S288c)  (taxid:559292) Baker's yeast
strain: ATCC 204508 / S288c
mol_id organism_scientific organism_common
6 Saccharomyces cerevisiae (strain ATCC 204508 / S288c)  (taxid:559292) Baker's yeast
strain: ATCC 204508 / S288c
mol_id organism_scientific organism_common
7 Saccharomyces cerevisiae (strain ATCC 204508 / S288c)  (taxid:559292) Baker's yeast
strain: ATCC 204508 / S288c
mol_id organism_scientific organism_common
8 Saccharomyces cerevisiae (strain ATCC 204508 / S288c)  (taxid:559292) Baker's yeast
strain: ATCC 204508 / S288c
mol_id organism_scientific organism_common
9 Saccharomyces cerevisiae (strain ATCC 204508 / S288c)  (taxid:559292) Baker's yeast
strain: ATCC 204508 / S288c
mol_id organism_scientific organism_common
10 Saccharomyces cerevisiae (strain ATCC 204508 / S288c)  (taxid:559292) Baker's yeast
strain: ATCC 204508 / S288c
mol_id organism_scientific organism_common expression_system
11 Saccharomyces cerevisiae (strain ATCC 204508 / S288c)  (taxid:559292) Baker's yeast Escherichia coli  (taxid:511693)
strain: ATCC 204508 / S288c
gene: DST1, PPR2, YGL043W
expression_system_strain: BL21
mol_id organism_scientific
12 Synthetic construct  (taxid:32630)
synthetic: yes
other_details: Synthetic RNA
mol_id organism_scientific
13 Synthetic construct  (taxid:32630)
synthetic: yes
other_details: Synthetic template DNA
mol_id organism_scientific
14 Synthetic construct  (taxid:32630)
synthetic: yes
other_details: Synthetic non-template DNA
Authors : Wang, D., Bushnell, D.A., Huang, X., Westover, K.D., Levitt, M., Kornberg, R.D.
Keywords : TRANSCRIPTION, TRANSFERASE, DNA-RNA HYBRID, Backtrack, DNA-directed RNA polymerase, DNA binding, Isopeptide bond, Magnesium, Metal binding, Nucleotidyltransferase, Nucleus, Phosphoprotein, Ubl conjugation, Zinc, Zinc-finger, Polymorphism, Cytoplasm, DNA damage, DNA repair, Transcription regulation, TRANSFERASE-DNA-RNA HYBRID COMPLEX
Exp. method : X-RAY DIFFRACTION ( 3.80 Å )
Citation :

Structural basis of transcription: backtracked RNA polymerase II at 3.4 angstrom resolution.

Wang, D.,Bushnell, D.A.,Huang, X.  et al.
(2009)  Science  324 : 1203 - 1206

PubMed: 19478184
DOI: 10.1126/science.1168729

Reaction

Chain : A
UniProt : P04050 (RPB1_YEAST)
Reaction: EC: Evidence:
Physiological Direction:
a ribonucleoside 5'-triphosphate + RNA(n) = diphosphate + RNA(n+1) 2.7.7.6 -
-
Chain : B
UniProt : P08518 (RPB2_YEAST)
Reaction: EC: Evidence:
Physiological Direction:
a ribonucleoside 5'-triphosphate + RNA(n) = diphosphate + RNA(n+1) 2.7.7.6 -
-
Chain : C
UniProt : P16370 (RPB3_YEAST)
Reaction : -
Chain : E
UniProt : P20434 (RPAB1_YEAST)
Reaction : -
Chain : F
UniProt : P20435 (RPAB2_YEAST)
Reaction : -
Chain : H
UniProt : P20436 (RPAB3_YEAST)
Reaction : -
Chain : I
UniProt : P27999 (RPB9_YEAST)
Reaction : -
Chain : J
UniProt : P22139 (RPAB5_YEAST)
Reaction : -
Chain : K
UniProt : P38902 (RPB11_YEAST)
Reaction : -
Chain : L
UniProt : P40422 (RPAB4_YEAST)
Reaction : -
Chain : S
UniProt : P07273 (TFS2_YEAST)
Reaction : -