2GGX Sugar Binding Protein date Mar 24, 2006
title Crystal Structure Of The Trimer Neck And Carbohydrate Recogn Domain Of Human Surfactant Protein D In Complex With P-Nitr Maltoside
authors J.Head
compound source
Molecule: Pulmonary Surfactant-Associated Protein D
Chain: A, B, C
Fragment: Trimeric Neck And Carbohydrate Recognition Domain
Synonym: Sp-D, Psp-D
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Sftpd
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Rosetta Blue
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-30a(+)
symmetry Space Group: P 1 21 1
R_factor 0.214 R_Free 0.238
crystal
cell
length a length b length c angle alpha angle beta angle gamma
55.431 106.400 55.080 90.00 92.65 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand CA, NPJ enzyme
Primary referenceContributions of phenylalanine 335 to ligand recognition by human surfactant protein D: ring interactions with SP-D ligands., Crouch E, McDonald B, Smith K, Cafarella T, Seaton B, Head J, J Biol Chem. 2006 Jun 30;281(26):18008-14. Epub 2006 Apr 24. PMID:16636058
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (83 Kb) [Save to disk]
  • Biological Unit Coordinates (2ggx.pdb1.gz) 76 Kb
  • LPC: Ligand-Protein Contacts for 2GGX
  • CSU: Contacts of Structural Units for 2GGX
  • Likely Quarternary Molecular Structure file(s) for 2GGX
  • Structure Factors (1026 Kb)
  • Retrieve 2GGX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2GGX from S2C, [Save to disk]
  • Re-refined 2ggx structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2GGX 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 2GGX
  • 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 2GGX, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2ggx_A] [2ggx] [2ggx_C] [2ggx_B]
  • SWISS-PROT database: [P35247]
  • Domain organization of [SFTPD_HUMAN] by SWISSPFAM
  • Domain found in 2GGX: [CLECT ] by SMART
    • Other resources with information on 2GGX
  • Community annotation for 2GGX 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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