5N61 Transferase date Feb 14, 2017
title Rna Polymerase I Initially Transcribing Complex
authors C.Engel, T.Gubbey, S.Neyer, S.Sainsbury, C.Oberthuer, C.Baejen, C. P.Cramer
compound source
Molecule: Dna-Directed Rna Polymerase I Subunit Rpa190
Chain: A
Synonym: Dna-Directed Rna Polymerase I 190 Kda Polypeptide, Directed Rna Polymerase I Largest Subunit;
Ec: 2.7.7.6
Organism_scientific: Saccharomyces Cerevisiae (Strain Atcc S288c);
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c

Molecule: Dna-Directed Rna Polymerase I Subunit Rpa135
Chain: B
Synonym: Dna-Directed Rna Polymerase I 135 Kda Polypeptide, Directed Rna Polymerase I Polypeptide 2,Rna Polymerase I Su
Ec: 2.7.7.6

Organism_scientific: Saccharomyces Cerevisiae (Strain Atcc S288c);
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c

Molecule: Dna-Directed Rna Polymerases I And III Subunit Rp
Chain: C
Synonym: Rna Polymerases I And III Subunit Ac1,C37,Dna-Dire Polymerases I And III 40 Kda Polypeptide,C40;

Organism_scientific: Saccharomyces Cerevisiae (Strain Atcc S288c);
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c

Molecule: Dna-Directed Rna Polymerase I Subunit Rpa14
Chain: D
Synonym: A14,Dna-Directed Rna Polymerase I 14 Kda Polypepti

Organism_scientific: Saccharomyces Cerevisiae (Strain Atcc S288c);
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c

Molecule: Dna-Directed Rna Polymerases I, II, And III Subun
Chain: E
Synonym: Rna Polymerases I,II,And III Subunit Abc1,Abc27,Dn Rna Polymerases I,And III 27 Kda Polypeptide;

Organism_scientific: Saccharomyces Cerevisiae (Strain Atcc S288c);
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c

Molecule: Dna-Directed Rna Polymerases I, II, And III Subun
Chain: F
Synonym: Rna Polymerases I,II,And III Subunit Abc2,Abc23,Dn Rna Polymerases I,And III 23 Kda Polypeptide;

Organism_scientific: Saccharomyces Cerevisiae (Strain Atcc S288c);
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c

Molecule: Dna-Directed Rna Polymerase I Subunit Rpa43
Chain: G
Synonym: A43,Dna-Directed Dna-Dependent Rna Polymerase 36 K Polypeptide;

Organism_scientific: Saccharomyces Cerevisiae (Strain Atcc S288c);
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c

Molecule: Dna-Directed Rna Polymerases I, II, And III Subun
Chain: H
Synonym: Rna Polymerases I,II,And III Subunit Abc3,Abc14.4, Dna-Directed Rna Polymerases I,And III 14.5 Kda Polypeptide

Organism_scientific: Saccharomyces Cerevisiae (Strain Atcc S288c);
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c

Molecule: Dna-Directed Rna Polymerase I Subunit Rpa12
Chain: I
Synonym: A12,A12.2,Dna-Directed Rna Polymerase I 13.7 Kda Polypeptide;

Organism_scientific: Saccharomyces Cerevisiae (Strain Atcc S288c);
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c

Molecule: Dna-Directed Rna Polymerases I, II, And III Subun
Chain: J
Synonym: Rna Polymerases I,II,And III Subunit Abc5,Abc10-Be Dna-Directed Rna Polymerases I,And III 8.3 Kda Polypeptide;

Organism_scientific: Saccharomyces Cerevisiae (Strain Atcc S288c);
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c

Molecule: Dna-Directed Rna Polymerases I And III Subunit Rp
Chain: K
Synonym: Rna Polymerases I And III Subunit Ac2,Ac19,Dna-Dir Polymerases I And III 16 Kda Polypeptide,Rpa19;

Organism_scientific: Saccharomyces Cerevisiae (Strain Atcc S288c);
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c

Molecule: Dna-Directed Rna Polymerases I, II, And III Subun
Chain: L
Synonym: Rna Polymerases I,II,And III Subunit Abc4,Abc10-Al

Organism_scientific: Saccharomyces Cerevisiae (Strain Atcc S288c);
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c

Molecule: Dna-Directed Rna Polymerase I Subunit Rpa49
Chain: M
Synonym: A49,Dna-Directed Rna Polymerase I 49 Kda Polypepti

Organism_scientific: Saccharomyces Cerevisiae (Strain Atcc S288c);
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c

Molecule: Dna-Directed Rna Polymerase I Subunit Rpa34
Chain: N
Synonym: A34,Dna-Directed Dna-Dependent Rna Polymerase 34.5 Polypeptide,A34.5;

Organism_scientific: Saccharomyces Cerevisiae (Strain Atcc S288c);
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c

Molecule: Rna Polymerase I-Specific Transcription Initiatio Rrn3;
Chain: O
Engineered: Yes

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c
Gene: Rrn3, Ykl125w
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008

Molecule: Rna Polymerase I-Specific Transcription Initiatio Rrn6;
Chain: P
Engineered: Yes

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c
Gene: Rrn6, Ybl014c, Ybl0311, Ybl0312
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008

Molecule: Rna Polymerase I-Specific Transcription Initiatio Rrn7;
Chain: Q
Engineered: Yes

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c
Gene: Rrn7, Yjl025w, J1273
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008

Molecule: Rna Polymerase I-Specific Transcription Initiatio Rrn11;
Chain: R
Engineered: Yes

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c
Gene: Rrn11, Yml043c, Ym9827.09c
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008

Molecule: Product Rna
Chain: S
Engineered: Yes

Synthetic: Yes
Organism_scientific: Saccharomyces Cerevisiae
Organism_taxid: 559292

Molecule: Template Dna
Chain: T
Engineered: Yes

Synthetic: Yes
Organism_scientific: Saccharomyces Cerevisiae
Organism_taxid: 559292

Molecule: Non-Template Dna
Chain: U
Engineered: Yes

Synthetic: Yes
Organism_scientific: Saccharomyces Cerevisiae
Organism_taxid: 559292
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 3.40 Å
ligand MG, SO4, ZN enzyme Transferase E.C.2.7.7.6 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


B


C


D


E
  • RNA-directed 5'-3' RNA polym...


  • F
  • RNA-directed 5'-3' RNA polym...


  • G


    H
  • RNA-directed 5'-3' RNA polym...


  • I


    J
  • RNA-directed 5'-3' RNA polym...

  • DNA-directed RNA polymerase ...
  • K


    L
  • RNA-directed 5'-3' RNA polym...


  • M


    N


    O


    P
  • RNA polymerase I CORE elemen...


  • Q


    R
  • RNA polymerase I CORE elemen...


  • Primary referenceStructural Basis of RNA Polymerase I Transcription Initiation., Engel C, Gubbey T, Neyer S, Sainsbury S, Oberthuer C, Baejen C, Bernecky C, Cramer P, Cell. 2017 Mar 23;169(1):120-131.e22. doi: 10.1016/j.cell.2017.03.003. PMID:28340337
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (853 Kb) [Save to disk]
  • Biological Unit Coordinates (5n61.pdb1.gz) 835 Kb
  • LPC: Ligand-Protein Contacts for 5N61
  • CSU: Contacts of Structural Units for 5N61
  • Retrieve 5N61 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5N61 from S2C, [Save to disk]
  • View 5N61 in 3D
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  • Visual 3D analysis of 5N61
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  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5n61 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5n61_O] [5n61_G] [5n61_M] [5n61_D] [5n61_B] [5n61_R] [5n61_S] [5n61_A] [5n61_E] [5n61_J] [5n61_H] [5n61_L] [5n61_P] [5n61_Q] [5n61] [5n61_K] [5n61_C] [5n61_T] [5n61_N] [5n61_F] [5n61_U] [5n61_I]
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  • Domain organization of by SWISSPFAM
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  • Community annotation for 5N61 at PDBWiki (http://pdbwiki.org)

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