2IT6 Immune System date Oct 19, 2006
title Crystal Structure Of Dcsign-Crd With Man2
authors W.I.Weis, H.Feinberg, R.Castelli, K.Drickamer, P.H.Seeberger
compound source
Molecule: Cd209 Antigen
Chain: A
Synonym: Dendritic Cell-Specific Icam-3-Grabbing Nonintegrin 1, Dc-Sign1, Dc-Sign, C-Type Lectin Domain Family 4 Member L;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cd209, Clec4l
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
symmetry Space Group: P 43
R_factor 0.196 R_Free 0.241
crystal
cell
length a length b length c angle alpha angle beta angle gamma
55.640 55.640 53.200 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.95 Å
ligand CA, MAN enzyme
Primary referenceMultiple modes of binding enhance the affinity of DC-SIGN for high mannose N-linked glycans found on viral glycoproteins., Feinberg H, Castelli R, Drickamer K, Seeberger PH, Weis WI, J Biol Chem. 2007 Feb 9;282(6):4202-9. Epub 2006 Dec 6. PMID:17150970
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (32 Kb) [Save to disk]
  • Biological Unit Coordinates (2it6.pdb1.gz) 27 Kb
  • LPC: Ligand-Protein Contacts for 2IT6
  • CSU: Contacts of Structural Units for 2IT6
  • Likely Quarternary Molecular Structure file(s) for 2IT6
  • Structure Factors (92 Kb)
  • Retrieve 2IT6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2IT6 from S2C, [Save to disk]
  • Re-refined 2it6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2IT6 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 2IT6
  • 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 2IT6, from MSDmotif at EBI
  • Fold representative 2it6 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2it6] [2it6_A]
  • SWISS-PROT database: [Q9NNX6]
  • Domain organization of [CD209_HUMAN] by SWISSPFAM
  • Domain found in 2IT6: [CLECT ] by SMART
  • Other resources with information on 2IT6
  • Community annotation for 2IT6 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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