2WY7 Immune System date Nov 13, 2009
title Staphylococcus Aureus Complement Subversion Protein Sbi-Iv I With Complement Fragment C3d Revealing An Alternative Bindi
authors E.A.Clark, S.Crennell, A.Upadhyay, J.D.Mackay, S.Bagby, J.M.Van D
compound source
Molecule: Complement C3d Fragment
Chain: A
Fragment: C3d, Residues 996-1303
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet15b

Molecule: Igg-Binding Protein
Chain: Q
Fragment: Sbi-Iv, Residues 198-266
Synonym: Sbi
Engineered: Yes

Organism_scientific: Staphylococcus Aureus
Organism_taxid: 1280
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pqe30
symmetry Space Group: P 21 21 21
R_factor 0.17218 R_Free 0.20488
crystal
cell
length a length b length c angle alpha angle beta angle gamma
53.430 81.010 87.830 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.70 Å
ligand GOL enzyme
Primary referenceA structural basis for Staphylococcal complement subversion: X-ray structure of the complement-binding domain of Staphylococcus aureus protein Sbi in complex with ligand C3d., Clark EA, Crennell S, Upadhyay A, Zozulya AV, Mackay JD, Svergun DI, Bagby S, van den Elsen JM, Mol Immunol. 2010 Nov 3. PMID:21055811
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (70 Kb) [Save to disk]
  • Biological Unit Coordinates (2wy7.pdb1.gz) 66 Kb
  • LPC: Ligand-Protein Contacts for 2WY7
  • CSU: Contacts of Structural Units for 2WY7
  • Structure Factors (505 Kb)
  • Retrieve 2WY7 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2WY7 from S2C, [Save to disk]
  • Re-refined 2wy7 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2WY7 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 2WY7
  • 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 2WY7, from MSDmotif at EBI
  • Fold representative 2wy7 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2wy7] [2wy7_A] [2wy7_Q]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 2WY7 with the sequences similar proteins can be viewed for 2WY7'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 2WY7
  • Community annotation for 2WY7 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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