3PBF Sugar Binding Protein date Oct 20, 2010
title Surfactant Protein-A Neck And Carbohydrate Recognition Domai Complexed With Glycerol
authors F.Shang, M.J.Rynkiewicz, F.X.Mccormack, H.Wu, T.M.Cafarella, J.He B.A.Seaton
compound source
Molecule: Pulmonary Surfactant-Associated Protein A
Chain: A
Fragment: Unp Residues 101-248
Synonym: Psap, Psp-A, Sp-A
Engineered: Yes
Mutation: Yes
 Organism_scientific: Rattus Norvegicus
Organism_common: Brown Rat,Rat,Rats
Organism_taxid: 10116
Gene: Sftp-1, Sftp1, Sftpa, Sftpa1
Expression_system: Trichoplusia
Expression_system_taxid: 7110
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pvl 1392
symmetry Space Group: P 63
R_factor 0.207 R_Free 0.223
crystal
cell
length a length b length c angle alpha angle beta angle gamma
97.376 97.376 44.905 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.80 Å
ligand CA, GOL enzyme
Primary referenceCrystallographic Complexes of Surfactant Protein A and Carbohydrates Reveal Ligand-induced Conformational Change., Shang F, Rynkiewicz MJ, McCormack FX, Wu H, Cafarella TM, Head JF, Seaton BA, J Biol Chem. 2011 Jan 7;286(1):757-65. Epub 2010 Nov 3. PMID:21047777
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (32 Kb) [Save to disk]
  • Biological Unit Coordinates (3pbf.pdb1.gz) 78 Kb
  • LPC: Ligand-Protein Contacts for 3PBF
  • CSU: Contacts of Structural Units for 3PBF
  • Structure Factors (336 Kb)
  • Retrieve 3PBF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3PBF from S2C, [Save to disk]
  • Re-refined 3pbf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3PBF 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 3PBF
  • 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 3PBF, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3pbf_A] [3pbf]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3PBF: [CLECT ] by SMART
    • Other resources with information on 3PBF
  • Community annotation for 3PBF 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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