1DFW Immune System date Nov 22, 1999
title Conformational Mapping Of The N-Terminal Segment Of Surfactant Protein B In Lipid Using 13c-Enhanced Fourier Transform Infrared Spectroscopy (Ftir)
authors L.M.Gordon, K.Y.C.Lee, M.M.Lipp, J.A.Zasadzinski, F.J.Walther, M.A.Sherman, A.J.Waring
compound source
Molecule: Lung Surfactant Protein B
Chain: A
Fragment: Residues 1-25
Engineered: Yes
 Synthetic: Yes
Other_details: This Peptide Was Chemically Synthesized. The Sequence Occurs Naturally In Humans (Homo Sapiens)
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Infrared Spectroscopy, 10 Modelsresolution
note 1DFW is a representative structure
Primary referenceConformational mapping of the N-terminal segment of surfactant protein B in lipid using 13C-enhanced Fourier transform infrared spectroscopy., Gordon LM, Lee KY, Lipp MM, Zasadzinski JA, Walther FJ, Sherman MA, Waring AJ, J Pept Res 2000 Apr;55(4):330-47. PMID:10798379
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (75 Kb) [Save to disk]
  • Biological Unit Coordinates (1dfw.pdb1.gz) 8 Kb
  • CSU: Contacts of Structural Units for 1DFW
  • Retrieve 1DFW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1DFW from S2C, [Save to disk]
    • View 1DFW 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.
  • On AstexViewer, from MSD-EBI (viewer documentation).
  • On RasMol (Install RasMol freeware) Here's help on how to use RasMol.
    • Visual 3D analysis of 1DFW
  • 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 1DFW, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1dfwa_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1dfw from FSSP and Dali (Families of Structurally Similar Proteins)
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1dfw_A]
  • SWISS-PROT database: [P07988]
  • Domain organization of [PSPB_HUMAN] by SWISSPFAM
  • Alignments of the sequence of 1DFW with the sequences similar proteins can be viewed for 1DFW's classification [PSPB_HUMAN] 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 [PSPB_HUMAN] at ProtoMap. Click on the Cluster number.
    • Other resources with information on 1DFW
  • Community annotation for 1DFW 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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