6J9F Transcription date Jan 22, 2019
title Cryo-Em Structure Of Xanthomonos Oryzae Transcription Elonga Complex With The Bacteriophage Protein P7
authors L.L.You, Y.Zhang
compound source
Molecule: Dna-Directed Rna Polymerase Subunit Alpha
Chain: A, B
Synonym: Rnap Subunit Alpha,Rna Polymerase Subunit Alpha, Transcriptase Subunit Alpha;
Ec: 2.7.7.6
Engineered: Yes
Organism_scientific: Xanthomonas Oryzae Pv. Oryzae Pxo99a
Organism_taxid: 360094
Gene: Rpoa
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)

Molecule: Dna-Directed Rna Polymerase Subunit Beta
Chain: C
Synonym: Rnap Subunit Beta,Rna Polymerase Subunit Beta,Tran Subunit Beta;
Ec: 2.7.7.6
Engineered: Yes

Organism_scientific: Xanthomonas Oryzae Pv. Oryzae Maff 311
Organism_taxid: 342109
Strain: Maff 311018
Gene: Rpob, Xoo3394
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)

Molecule: Dna-Directed Rna Polymerase Subunit Beta'
Chain: D
Synonym: Rnap Subunit Beta',Rna Polymerase Subunit Beta', Transcriptase Subunit Beta';
Ec: 2.7.7.6
Engineered: Yes

Organism_scientific: Xanthomonas Oryzae Pv. Oryzae Pxo99a
Organism_taxid: 360094
Gene: Rpoc
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)

Molecule: Dna-Directed Rna Polymerase Subunit Omega
Chain: E
Synonym: Rnap Omega Subunit,Rna Polymerase Omega Subunit, Transcriptase Subunit Omega;
Ec: 2.7.7.6
Engineered: Yes

Organism_scientific: Xanthomonas Oryzae Pv. Oryzae
Organism_taxid: 64187
Gene: Rpoz
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)

Molecule: Dna (29-Mer)
Chain: G
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (29-Mer)
Chain: H
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Rna (5'-R(Papgpcpgpgpapgpapgpgpupa)-3
Chain: I
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: 45l
Chain: J
Synonym: Rna Polymerase Inhibitor P7
Engineered: Yes

Organism_scientific: Xanthomonas Virus Xp10
Organism_taxid: 232237
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
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 3.95 Å
ligand MG, ZN enzyme Transferase E.C.2.7.7.6 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


C


D


E


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (434 Kb) [Save to disk]
  • Biological Unit Coordinates (6j9f.pdb1.gz) 425 Kb
  • LPC: Ligand-Protein Contacts for 6J9F
  • CSU: Contacts of Structural Units for 6J9F
  • Retrieve 6J9F in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6J9F from S2C, [Save to disk]
  • View 6J9F 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 6J9F
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6j9f_D] [6j9f_E] [6j9f_A] [6j9f_B] [6j9f_C] [6j9f_G] [6j9f_I] [6j9f_H] [6j9f_J]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6J9F
  • Community annotation for 6J9F at PDBWiki (http://pdbwiki.org)

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