1R8I Structural Protein date Oct 24, 2003
title Crystal Structure Of Trac
authors H.J.Yeo, Q.Yuan, M.R.Beck, C.Baron, G.Waksman
compound source
Molecule: Trac
Chain: A
Engineered: Yes
 Organism_scientific: Escherichia Coli
Organism_taxid: 562
Gene: Trac
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Jm109, Dl41
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ptrctrac
symmetry Space Group: H 3 2
R_factor 0.263 R_Free 0.288
crystal
cell
length a length b length c angle alpha angle beta angle gamma
144.015 144.015 91.880 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.00 Å
Primary referenceStructural and functional characterization of the VirB5 protein from the type IV secretion system encoded by the conjugative plasmid pKM101., Yeo HJ, Yuan Q, Beck MR, Baron C, Waksman G, Proc Natl Acad Sci U S A 2003 Dec 23;100(26):15947-52. Epub 2003 Dec 12. PMID:14673074
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (33 Kb) [Save to disk]
  • Biological Unit Coordinates (1r8i.pdb1.gz) 28 Kb
  • CSU: Contacts of Structural Units for 1R8I
  • Likely Quarternary Molecular Structure file(s) for 1R8I
  • Structure Factors (182 Kb)
  • Retrieve 1R8I in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1R8I from S2C, [Save to disk]
  • Re-refined 1r8i structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1R8I 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 1R8I
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1R8I, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1r8ia_, region A [Jmol] [rasmolscript] [script source]
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1r8i] [1r8i_A]
  • SWISS-PROT database: [Q9L6G5]
  • Domain organization of [Q9L6G5_ECOLX] by SWISSPFAM
    • Other resources with information on 1R8I
  • Community annotation for 1R8I at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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