1PW9 Signaling Protein date Jul 01, 2003
title High Resolution Crystal Structure Of An Active Recombinant F Human Lung Surfactant Protein D
authors A.K.Shrive, H.A.Tharia, P.Strong, U.Kishore, I.Burns, P.J.Rizkall K.B.Reid, T.J.Greenhough
compound source
Molecule: Pulmonary Surfactant-Associated Protein D
Chain: A, B, C
Fragment: Residues 179-355
Synonym: Sp-D, Psp-D
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Sftpd, Sftp4, Pspd
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1 21 1
R_factor 0.227 R_Free 0.249
crystal
cell
length a length b length c angle alpha angle beta angle gamma
55.550 108.520 55.690 90.00 91.20 90.00
method X-Ray Diffractionresolution 1.60 Å
ligand CA enzyme
related structures by homologous chain: 1PWB
Primary referenceHigh-resolution structural insights into ligand binding and immune cell recognition by human lung surfactant protein D., Shrive AK, Tharia HA, Strong P, Kishore U, Burns I, Rizkallah PJ, Reid KB, Greenhough TJ, J Mol Biol 2003 Aug 8;331(2):509-23. PMID:12888356
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (84 Kb) [Save to disk]
  • Biological Unit Coordinates (1pw9.pdb1.gz) 77 Kb
  • LPC: Ligand-Protein Contacts for 1PW9
  • CSU: Contacts of Structural Units for 1PW9
  • Likely Quarternary Molecular Structure file(s) for 1PW9
  • Structure Factors (581 Kb)
  • Retrieve 1PW9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1PW9 from S2C, [Save to disk]
  • Re-refined 1pw9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1PW9 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 1PW9
  • 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 1PW9, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1pw9a2, region A:205-234 [Jmol] [rasmolscript] [script source]
        - Domain d1pw9a1, region A:235-355 [Jmol] [rasmolscript] [script source]
        - Domain d1pw9b2, region B:205-234 [Jmol] [rasmolscript] [script source]
        - Domain d1pw9b1, region B:235-355 [Jmol] [rasmolscript] [script source]
        - Domain d1pw9c2, region C:206-234 [Jmol] [rasmolscript] [script source]
        - Domain d1pw9c1, region C:235-355 [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1pw9_C] [1pw9_A] [1pw9] [1pw9_B]
  • SWISS-PROT database: [P35247]
  • Domain organization of [SFTPD_HUMAN] by SWISSPFAM
  • Domain found in 1PW9: [CLECT ] by SMART
    • Other resources with information on 1PW9
  • Community annotation for 1PW9 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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