4QPQ Transcription Dna date Jun 24, 2014
title Mechanistic Basis Of Plasmid-Specific Dna Binding Of The F P Regulatory Protein, Tram
authors Y.Peng, J.Lu, J.Wong, R.A.Edwards, L.S.Frost, J.N.M.Glover
compound source
Molecule: Relaxosome Protein Tram
Chain: A, B, C, D, E, F, G, H
Fragment: F-Tram Rhh Domain, Unp Residues 2-54
Engineered: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 83333
Strain: K12
Gene: Tram, Ecok12f071
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Sbma Dna1
Chain: P
Engineered: Yes

Synthetic: Yes
Other_details: Synthetic Dna

Molecule: Sbma Dna2
Chain: Q
Engineered: Yes

Synthetic: Yes
Other_details: Synthetic Dna
symmetry Space Group: P 43 21 2
R_factor 0.224 R_Free 0.232
crystal
cell
length a length b length c angle alpha angle beta angle gamma
87.057 87.057 217.843 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.11 Å
Gene
Ontology
ChainFunctionProcessComponent
F, A, E, B, H, C, D, G


Primary referenceMechanistic Basis of Plasmid-Specific DNA Binding of the F Plasmid Regulatory Protein, TraM., Peng Y, Lu J, Wong JJ, Edwards RA, Frost LS, Mark Glover JN, J Mol Biol. 2014 Oct 2. pii: S0022-2836(14)00517-8. doi:, 10.1016/j.jmb.2014.09.018. PMID:25284757
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (192 Kb) [Save to disk]
  • Biological Unit Coordinates (4qpq.pdb1.gz) 186 Kb
  • CSU: Contacts of Structural Units for 4QPQ
  • Structure Factors (251 Kb)
  • Retrieve 4QPQ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4QPQ from S2C, [Save to disk]
  • Re-refined 4qpq structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4QPQ 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 4QPQ
  • 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
  • 3D motif for 4QPQ, from MSDmotif at EBI
  • Fold representative 4qpq from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4qpq_H] [4qpq_C] [4qpq_P] [4qpq_B] [4qpq_E] [4qpq_A] [4qpq_F] [4qpq_Q] [4qpq_G] [4qpq_D] [4qpq]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4QPQ
  • Community annotation for 4QPQ at PDBWiki (http://pdbwiki.org)

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