Brand  (β version)

PDB ID: 4X6A

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Ligands
Code Name Style Show Link
ZN Zinc ion PoSSuM
Non-standard Residues
Code Name Show
02I (6s,7s,8s,10r)-4-amino-8-hydroxy-7,8,9,10-tetrahydro-6h-7,10-epoxyazepino[1,2-E]purin-6-yl dihydrogen phosphate
Glycosylation
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Modification
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Structure summary

Code : 4X6A   PDBj   RCSB PDB   PDBe
Header : TRANSCRIPTION/DNA
Title : Crystal structure of yeast RNA polymerase II encountering oxidative Cyclopurine DNA lesions
Release Data : 2015-02-04
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
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,RNA polymerase II subunit 2,B150,DNA-directed RNA polymerase II 140 kDa polypeptide
ec: 2.7.7.6
mol_id molecule chains synonym
3 DNA-directed RNA polymerase II subunit RPB3 C RNA polymerase II subunit B3,B44.5,DNA-directed RNA polymerase II 45 kDa polypeptide
mol_id molecule chains synonym
4 DNA-directed RNA polymerases I, II, and III subunit RPABC1 E RNA polymerases I,II,and III subunit ABC1,ABC27,DNA-directed RNA polymerases I,and III 27 kDa polypeptide
mol_id molecule chains synonym
5 DNA-directed RNA polymerases I, II, and III subunit RPABC2 F RNA polymerases I,II,and III subunit ABC2,ABC23,DNA-directed RNA polymerases I,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
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
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
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
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
mol_id molecule chains
11 RNA_9 mer R
mol_id molecule chains
12 Template DNA _29 mer T
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
11 Synthetic construct  (taxid:32630)
synthetic: yes
mol_id organism_scientific
12 Synthetic construct  (taxid:32630)
synthetic: yes
Authors : Wang, L., Chong, J., Wang, D.
Keywords : pol II elongation complex Oxidative Cyclopurine DNA Lesions, TRANSCRIPTION-DNA complex
Exp. method : X-RAY DIFFRACTION ( 3.9600 Å )
Citation :

Mechanism of RNA polymerase II bypass of oxidative cyclopurine DNA lesions.

Walmacq, C.,Wang, L.,Chong, J.  et al.
(2015)  Proc.Natl.Acad.Sci.USA  112 : E410 - E419

PubMed: 25605892
DOI: 10.1073/pnas.1415186112

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 : -