5T09 Toxin date Aug 15, 2016
title The Structure Of The Type III Effector Hopba1
authors K.Cherkis, M.Machius, M.T.Nishimura, J.L.Dangl
compound source
Molecule: Type III Secretion System Effector Hopba1
Chain: A
Engineered: Yes
Organism_scientific: Pseudomonas Syringae Pv. Aptata
Organism_taxid: 83167
Gene: Alo85_00915
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3) Rosetta
symmetry Space Group: P 31 2 1
R_factor 0.200 R_Free 0.232
crystal
cell
length a length b length c angle alpha angle beta angle gamma
64.865 64.865 96.380 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.01 Å
ligand CL, K, MSE enzyme
Gene ALO85
Primary referenceTIR-only protein RBA1 recognizes a pathogen effector to regulate cell death in Arabidopsis., Nishimura MT, Anderson RG, Cherkis KA, Law TF, Liu QL, Machius M, Nimchuk ZL, Yang L, Chung EH, El Kasmi F, Hyunh M, Osborne Nishimura E, Sondek JE, Dangl JL, Proc Natl Acad Sci U S A. 2017 Jan 30. pii: 201620973. doi:, 10.1073/pnas.1620973114. PMID:28137883
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (109 Kb) [Save to disk]
  • Biological Unit Coordinates (5t09.pdb1.gz) 104 Kb
  • LPC: Ligand-Protein Contacts for 5T09
  • CSU: Contacts of Structural Units for 5T09
  • Structure Factors (253 Kb)
  • Retrieve 5T09 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5T09 from S2C, [Save to disk]
  • Re-refined 5t09 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5T09 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 5T09
  • 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
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5t09_A] [5t09]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5T09
  • Community annotation for 5T09 at PDBWiki (http://pdbwiki.org)

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