3G84 Sugar Binding Protein date Feb 11, 2009
title Crystal Structure Of The Trimeric Neck And Carbohydrate Reco Domain Of R343v Mutant Of Human Surfactant Protein D In Com Alpha 1,2 Dimannose.
authors J.F.Head
compound source
Molecule: Pulmonary Surfactant-Associated Protein D
Chain: A, B, C
Fragment: Unp Residues 223-375
Synonym: Sp-D, Psp-D, Lung Surfactant Protein D
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Man
Organism_taxid: 9606
Gene: Sftpd, Pspd, Sftp4
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Rosetta Blue
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet30a (+)
symmetry Space Group: P 1 21 1
R_factor 0.152 R_Free 0.191
crystal
cell
length a length b length c angle alpha angle beta angle gamma
55.605 108.066 55.595 90.00 91.47 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand CA, MAN enzyme
Primary referenceRecognition of Mannosylated Ligands and Influenza A Virus by Human SP-D: Contributions of an Extended Site and Residue 343., Crouch E, Hartshorn K, Horlacher T, McDonald B, Smith K, Cafarella T, Seaton B, Seeberger P, Head J, Biochemistry. 2009 Feb 27. PMID:19249874
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (78 Kb) [Save to disk]
  • Biological Unit Coordinates (3g84.pdb1.gz) 72 Kb
  • LPC: Ligand-Protein Contacts for 3G84
  • CSU: Contacts of Structural Units for 3G84
  • Likely Quarternary Molecular Structure file(s) for 3G84
  • Structure Factors (279 Kb)
  • Retrieve 3G84 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3G84 from S2C, [Save to disk]
  • Re-refined 3g84 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3G84 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 3G84
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3G84, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3g84_B] [3g84_A] [3g84] [3g84_C]
  • SWISS-PROT database: [P35247]
  • Domain organization of [SFTPD_HUMAN] by SWISSPFAM
  • Domain found in 3G84: [CLECT ] by SMART
  • Other resources with information on 3G84
  • Community annotation for 3G84 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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