6CNF Transcription Dna date Mar 08, 2018
title Yeast Rna Polymerase III Elongation Complex
authors Y.Han, Y.He
compound source
Molecule: Dna-Directed Rna Polymerase III Subunit Rpc1
Chain: A
Synonym: Rna Polymerase III Subunit C1,Dna-Directed Rna Pol III Largest Subunit,Rna Polymerase III Subunit C160;
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 III Subunit Rpc2
Chain: B
Synonym: Rna Polymerase III Subunit C2,C128,Dna-Directed Rn Polymerase III 130 Kda Polypeptide;
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 III Subunit Rpc9
Chain: D
Synonym: Rna Polymerase III Subunit C9,Rna Polymerase III S C17;

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 III Subunit Rpc8
Chain: G

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 III Subunit Rpc10
Chain: I
Synonym: Rna Polymerase III Subunit C10,Dna-Directed Rna Po III 12.5 Kda Polypeptide,Rna Polymerase III Subunit C11;

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

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 III Subunit Rpc5
Chain: M
Synonym: Rna Polymerase III Subunit C5,Dna-Directed Rna Pol III 37 Kda Polypeptide,Rna Polymerase III Subunit C37;

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

Molecule: Dna-Directed Rna Polymerase III Subunit Rpc4
Chain: N
Synonym: Rna Polymerase III Subunit C4,C53,Dna-Directed Rna Polymerase III 47 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 III Subunit Rpc3
Chain: O
Synonym: Rna Polymerase III Subunit C3,C82,Dna-Directed III Polypeptide,C74;

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

Molecule: Dna-Directed Rna Polymerase III Subunit Rpc6
Chain: P
Synonym: Rna Polymerase III Subunit C6,C34,Dna-Directed Rna Polymerase III 36 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 III Subunit Rpc7,Dna- Rna Polymerase III Subunit Rpc7,Dna-Directed Rna Polymerase Subunit Rpc7,Dna-Directed Rna Polymerase III Subunit Rpc7,D Directed Rna Polymerase III Subunit Rpc7;
Chain: Q
Synonym: Rna Polymerase III Subunit C7,Dna-Directed Rna Pol III 31 Kda Polypeptide,C31,Rna Polymerase III Subunit C7,Dn Rna Polymerase III 31 Kda Polypeptide,C31,Rna Polymerase II C7,Dna-Directed Rna Polymerase III 31 Kda Polypeptide,C31,R Polymerase III Subunit C7,Dna-Directed Rna Polymerase III 3 Polypeptide,C31;

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

Molecule: Transcription Factor Iiib 70 Kda Subunit,Tata-Box Protein,Transcription Factor Iiib 70 Kda Subunit;
Chain: R
Synonym: Tfiiib,B-Related Factor 1,Brf-1,Tata Sequence-Bind Protein,Tbp,Tata-Binding Factor,Tata-Box Factor,Transcripti D,Transcription Initiation Factor Tfiid Tbp Subunit,Tfiiib, Factor 1,Brf-1;
Engineered: Yes
Mutation: Yes

Organism_scientific: Saccharomyces Cerevisiae (Strain Atcc S288c);
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c
Gene: Brf1, Pcf4, Tds4, Ygr246c, Spt15, Btf1, Tbp1, Yer148w
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Transcription Factor Tfiiib Component B'',Transcr Factor Tfiiib Component B'',Transcription Factor Tfiiib Com B'',Transcription Factor Tfiiib Component B'',Transcription Tfiiib Component B'';
Chain: S
Synonym: Tfiiib90,Tfiiib90,Tfiiib90,Tfiiib90
Engineered: Yes

Organism_scientific: Saccharomyces Cerevisiae (Strain Atcc S288c), Saccharomyces Cerevisiae S288c;
Organism_common: Baker'S Yeast
Organism_taxid: 559292
Strain: Atcc 204508 S288c
Gene: Bdp1, Tfc5, Ynl039w, N2682
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (79-Mer)
Chain: X
Engineered: Yes

Synthetic: Yes
Organism_scientific: Saccharomyces Cerevisiae S288c
Organism_taxid: 559292

Molecule: Dna (79-Mer)
Chain: Y
Engineered: Yes

Synthetic: Yes
Organism_scientific: Saccharomyces Cerevisiae S288c
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 4.50 Å
ligand 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


    Q


    R


    S
  • TFIIIC-class transcription f...
  • DNA-templated transcriptiona...
  • transcription factor TFIIIB ...
  • Primary referenceStructural visualization of RNA polymerase III transcription machineries., Han Y, Yan C, Fishbain S, Ivanov I, He Y, Cell Discov. 2018 Jul 31;4:40. doi: 10.1038/s41421-018-0044-z. eCollection 2018. PMID:30083386
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (835 Kb) [Save to disk]
  • Biological Unit Coordinates (6cnf.pdb1.gz) 819 Kb
  • LPC: Ligand-Protein Contacts for 6CNF
  • CSU: Contacts of Structural Units for 6CNF
  • Retrieve 6CNF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6CNF from S2C, [Save to disk]
  • View 6CNF in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 6CNF
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6cnf from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6cnf_A] [6cnf_M] [6cnf_X] [6cnf_Q] [6cnf_P] [6cnf_H] [6cnf_C] [6cnf_K] [6cnf_R] [6cnf_D] [6cnf_I] [6cnf_F] [6cnf_N] [6cnf_L] [6cnf_J] [6cnf_G] [6cnf_O] [6cnf_B] [6cnf_E] [6cnf_S] [6cnf_Y]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6CNF
  • Community annotation for 6CNF at PDBWiki (http://pdbwiki.org)

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