2ZG3 Immune System Carbohydrate Binding Prote date Jan 17, 2008
title Crystal Structure Of Two N-Terminal Domains Of Native Siglec Complex With 3'-Sialyllactose
authors M.A.Zhuravleva, P.D.Sun
compound source
Molecule: Sialic Acid-Binding Ig-Like Lectin 5
Chain: A
Fragment: N-Terminal V-Set And C2-Set Domain, Unp Residues
Synonym: Siglec-5, Obesity-Binding Protein 2, Ob-Binding Pr Ob-Bp2, Cd33 Antigen-Like 2, Cd170 Antigen;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Siglec5
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet30a
symmetry Space Group: H 3 2
R_factor 0.236 R_Free 0.274
crystal
cell
length a length b length c angle alpha angle beta angle gamma
93.134 93.134 213.558 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.00 Å
ligand BGC, GAL, SIA enzyme
Primary referenceStructural implications of Siglec-5-mediated sialoglycan recognition., Zhuravleva MA, Trandem K, Sun PD, J Mol Biol. 2008 Jan 11;375(2):437-47. Epub 2007 Oct 11. PMID:18022638
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (41 Kb) [Save to disk]
  • Biological Unit Coordinates (2zg3.pdb1.gz) 36 Kb
  • LPC: Ligand-Protein Contacts for 2ZG3
  • CSU: Contacts of Structural Units for 2ZG3
  • Likely Quarternary Molecular Structure file(s) for 2ZG3
  • Structure Factors (62 Kb)
  • Retrieve 2ZG3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2ZG3 from S2C, [Save to disk]
  • Re-refined 2zg3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2ZG3 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 2ZG3
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2ZG3, from MSDmotif at EBI
  • Fold representative 2zg3 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2zg3] [2zg3_A]
  • SWISS-PROT database: [O15389]
  • Domain organization of [SIGL5_HUMAN] by SWISSPFAM
  • Domains found in 2ZG3: [IG] [IG_like ] by SMART
  • Other resources with information on 2ZG3
  • Community annotation for 2ZG3 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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