4F8P Cell Adhesion date May 17, 2012
title X-Ray Structure Of Psaa From Yersinia Pestis, In Complex Wit Galactose
authors R.Bao, L.Esser, D.Xia
compound source
Molecule: Ph 6 Antigen
Chain: A, B
Synonym: Adhesin, Antigen 4
Engineered: Yes
Organism_scientific: Yersinia Pestis
Organism_taxid: 632
Gene: Psaa, Ypo1303, Y2882, Yp_1289
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
symmetry Space Group: P 65
R_factor 0.243 R_Free 0.279
length a length b length c angle alpha angle beta angle gamma
59.266 59.266 200.088 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.05 Å
ligand ACT, GAL, TBF enzyme
Gene YP
Primary referenceStructural basis for the specific recognition of dual receptors by the homopolymeric pH 6 antigen (Psa) fimbriae of Yersinia pestis., Bao R, Nair MK, Tang WK, Esser L, Sadhukhan A, Holland RL, Xia D, Schifferli DM, Proc Natl Acad Sci U S A. 2013 Jan 15;110(3):1065-70. doi:, 10.1073/pnas.1212431110. Epub 2012 Dec 31. PMID:23277582
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (52 Kb) [Save to disk]
  • Biological Unit Coordinates (4f8p.pdb1.gz) 24 Kb
  • Biological Unit Coordinates (4f8p.pdb2.gz) 24 Kb
  • LPC: Ligand-Protein Contacts for 4F8P
  • CSU: Contacts of Structural Units for 4F8P
  • Structure Factors (405 Kb)
  • Retrieve 4F8P in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4F8P from S2C, [Save to disk]
  • Re-refined 4f8p structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4F8P 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 4F8P
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4F8P, from MSDmotif at EBI
  • Fold representative 4f8p from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4f8p] [4f8p_A] [4f8p_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4F8P
  • Community annotation for 4F8P at PDBWiki (http://pdbwiki.org)

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