Brand  (β version)

PDB ID: 5N61

Hetero Atom Contents

  The number of atoms exceeds 100,000.
  So, it can not be displayed here.

Select unit:

Select hetatm:   

close
information
centroid:
interaction residue:

Select chain:   Sequence  

Data format:   

Color scheme of protein:

Ligands
Code Name Style Show Link
MG Magnesium ion PoSSuM
SO4 Sulfate ion PoSSuM
ZN Zinc ion PoSSuM
Non-standard Residues
Code Name Show
DN Unknown 2'-deoxynucleotide
Glycosylation
Code Name Emphasize
Modification
Code Name Show

Structure summary

Code : 5N61   PDBj   RCSB PDB   PDBe
Header : TRANSFERASE
Title : RNA polymerase I initially transcribing complex
Release Data : 2017-04-05
Compound :
mol_id molecule chains synonym
1 DNA-directed RNA polymerase I subunit RPA190 A DNA-directed RNA polymerase I 190 kDa polypeptide,A190,DNA-directed RNA polymerase I largest subunit
ec: 2.7.7.6
mol_id molecule chains synonym
2 DNA-directed RNA polymerase I subunit RPA135 B DNA-directed RNA polymerase I 135 kDa polypeptide,A135,DNA-directed RNA polymerase I polypeptide 2,RNA polymerase I subunit 2
ec: 2.7.7.6
mol_id molecule chains synonym
3 DNA-directed RNA polymerases I and III subunit RPAC1 C RNA polymerases I and III subunit AC1,C37,DNA-directed RNA polymerases I and III 40 kDa polypeptide,C40
mol_id molecule chains synonym
4 DNA-directed RNA polymerase I subunit RPA14 D A14,DNA-directed RNA polymerase I 14 kDa polypeptide
mol_id molecule chains synonym
5 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
6 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
7 DNA-directed RNA polymerase I subunit RPA43 G A43,DNA-directed DNA-dependent RNA polymerase 36 kDa polypeptide
mol_id molecule chains synonym
8 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
9 DNA-directed RNA polymerase I subunit RPA12 I A12,A12.2,DNA-directed RNA polymerase I 13.7 kDa polypeptide
mol_id molecule chains synonym
10 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
11 DNA-directed RNA polymerases I and III subunit RPAC2 K RNA polymerases I and III subunit AC2,AC19,DNA-directed RNA polymerases I and III 16 kDa polypeptide,RPA19
mol_id molecule chains synonym
12 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 synonym
13 DNA-directed RNA polymerase I subunit RPA49 M A49,DNA-directed RNA polymerase I 49 kDa polypeptide
mol_id molecule chains synonym
14 DNA-directed RNA polymerase I subunit RPA34 N A34,DNA-directed DNA-dependent RNA polymerase 34.5 kDa polypeptide,A34.5
mol_id molecule chains
15 RNA polymerase I-specific transcription initiation factor RRN3 O
mol_id molecule chains
16 RNA polymerase I-specific transcription initiation factor RRN6 P
mol_id molecule chains
17 RNA polymerase I-specific transcription initiation factor RRN7 Q
mol_id molecule chains
18 RNA polymerase I-specific transcription initiation factor RRN11 R
mol_id molecule chains
19 product RNA S
mol_id molecule chains
20 template DNA T
mol_id molecule chains
21 non-template DNA U
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
11 Saccharomyces cerevisiae (strain ATCC 204508 / S288c)  (taxid:559292) Baker's yeast
strain: ATCC 204508 / S288c
mol_id organism_scientific organism_common
12 Saccharomyces cerevisiae (strain ATCC 204508 / S288c)  (taxid:559292) Baker's yeast
strain: ATCC 204508 / S288c
mol_id organism_scientific organism_common
13 Saccharomyces cerevisiae (strain ATCC 204508 / S288c)  (taxid:559292) Baker's yeast
strain: ATCC 204508 / S288c
mol_id organism_scientific organism_common
14 Saccharomyces cerevisiae (strain ATCC 204508 / S288c)  (taxid:559292) Baker's yeast
strain: ATCC 204508 / S288c
mol_id organism_scientific organism_common expression_system
15 Saccharomyces cerevisiae  (taxid:559292) Baker's yeast Escherichia coli BL21(DE3)  (taxid:469008)
strain: ATCC 204508 / S288c
gene: RRN3, YKL125W
mol_id organism_scientific organism_common expression_system
16 Saccharomyces cerevisiae  (taxid:559292) Baker's yeast Escherichia coli BL21(DE3)  (taxid:469008)
strain: ATCC 204508 / S288c
gene: RRN6, YBL014C, YBL0311, YBL0312
mol_id organism_scientific organism_common expression_system
17 Saccharomyces cerevisiae  (taxid:559292) Baker's yeast Escherichia coli BL21(DE3)  (taxid:469008)
strain: ATCC 204508 / S288c
gene: RRN7, YJL025W, J1273
mol_id organism_scientific organism_common expression_system
18 Saccharomyces cerevisiae  (taxid:559292) Baker's yeast Escherichia coli BL21(DE3)  (taxid:469008)
strain: ATCC 204508 / S288c
gene: RRN11, YML043C, YM9827.09C
mol_id organism_scientific
19 Saccharomyces cerevisiae  (taxid:559292)
synthetic: yes
mol_id organism_scientific
20 Saccharomyces cerevisiae  (taxid:559292)
synthetic: yes
mol_id organism_scientific
21 Saccharomyces cerevisiae  (taxid:559292)
synthetic: yes
Authors : Engel, C., Gubbey, T., Neyer, S., Sainsbury, S., Oberthuer, C., Baejen, C., Bernecky, C., Cramer, P.
Keywords : RNA polymerase I, initially transcribing complex, transferase
Exp. method : ELECTRON MICROSCOPY ( 3.4 Å )
Citation :

Structural Basis of RNA Polymerase I Transcription Initiation.

Engel, C.,Gubbey, T.,Neyer, S.  et al.
(2017)  Cell  169 : 120 - 131.e22

PubMed: 28340337
DOI: 10.1016/j.cell.2017.03.003

Reaction

Chain : A
UniProt : P10964 (RPA1_YEAST)
Reaction: EC: Evidence:
Physiological Direction:
a ribonucleoside 5'-triphosphate + RNA(n) = diphosphate + RNA(n+1) 2.7.7.6 PubMed:18160037, PubMed:24153182, PubMed:24153184
-
Chain : B
UniProt : P22138 (RPA2_YEAST)
Reaction: EC: Evidence:
Physiological Direction:
a ribonucleoside 5'-triphosphate + RNA(n) = diphosphate + RNA(n+1) 2.7.7.6 PubMed:18160037, PubMed:24153182, PubMed:24153184
left-to-right PubMed:18160037, PubMed:24153182, PubMed:24153184
Chain : C
UniProt : P07703 (RPAC1_YEAST)
Reaction : -
Chain : D
UniProt : P50106 (RPA14_YEAST)
Reaction : -
Chain : E
UniProt : P20434 (RPAB1_YEAST)
Reaction : -
Chain : F
UniProt : P20435 (RPAB2_YEAST)
Reaction : -
Chain : G
UniProt : P46669 (RPA43_YEAST)
Reaction : -
Chain : H
UniProt : P20436 (RPAB3_YEAST)
Reaction : -
Chain : I
UniProt : P32529 (RPA12_YEAST)
Reaction : -
Chain : J
UniProt : P22139 (RPAB5_YEAST)
Reaction : -
Chain : K
UniProt : P28000 (RPAC2_YEAST)
Reaction : -
Chain : L
UniProt : P40422 (RPAB4_YEAST)
Reaction : -
Chain : M
UniProt : Q01080 (RPA49_YEAST)
Reaction : -
Chain : N
UniProt : P47006 (RPA34_YEAST)
Reaction : -
Chain : O
UniProt : P36070 (RRN3_YEAST)
Reaction : -
Chain : P
UniProt : P32786 (RRN6_YEAST)
Reaction : -
Chain : Q
UniProt : P40992 (RRN7_YEAST)
Reaction : -
Chain : R
UniProt : Q04712 (RRN11_YEAST)
Reaction : -