4F1Z Cell Adhesion date May 07, 2012
title Crystal Structures Reveal The Multi-Ligand Binding Mechanism Staphylococcus Aureus Clfb
authors M.J.Yang, H.Xiang, J.W.Wang, B.Liu, Y.G.Chen, L.Liu, X.M.Deng, Y.Fe
compound source
Molecule: Clumping Factor B
Chain: A
Fragment: N2 N3 Domain, Unp Residues 197-542
Synonym: Fibrinogen Receptor B, Fibrinogen-Binding Protein
Engineered: Yes
Organism_scientific: Staphylococcus Aureus
Organism_taxid: 282458
Strain: Mrsa252
Gene: Clfb, Sar2709
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid

Molecule: Peptide From Keratin, Type I Cytoskeletal 10
Chain: Q
Fragment: Tail Region, Unp Residues 473-486
Synonym: Cytokeratin-10, Ck-10, Keratin-10, K10
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Other_details: This Sequence Occurs Naturally In Humans.
symmetry Space Group: P 31 2 1
R_factor 0.247 R_Free 0.251
length a length b length c angle alpha angle beta angle gamma
70.331 70.331 177.157 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.30 Å
ligand MG enzyme

Primary referenceCrystal Structures Reveal the Multi-Ligand Binding Mechanism of Staphylococcus aureus ClfB., Xiang H, Feng Y, Wang J, Liu B, Chen Y, Liu L, Deng X, Yang M, PLoS Pathog. 2012 Jun;8(6):e1002751. Epub 2012 Jun 14. PMID:22719251
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (120 Kb) [Save to disk]
  • Biological Unit Coordinates (4f1z.pdb1.gz) 113 Kb
  • LPC: Ligand-Protein Contacts for 4F1Z
  • CSU: Contacts of Structural Units for 4F1Z
  • Structure Factors (271 Kb)
  • Retrieve 4F1Z in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4F1Z from S2C, [Save to disk]
  • Re-refined 4f1z structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4F1Z 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 4F1Z
  • 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 4F1Z, from MSDmotif at EBI
  • Fold representative 4f1z from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4f1z_Q] [4f1z_A] [4f1z]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 4F1Z with the sequences similar proteins can be viewed for 4F1Z's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.
  • Other resources with information on 4F1Z
  • Community annotation for 4F1Z at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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