1XAR Sugar Binding Protein date Aug 26, 2004
title Crystal Structure Of A Fragment Of Dc-Signr (Containing The Carbohydrate Recognition Domain And Two Repeats Of The Neck
authors H.Feinberg, Y.Guo, D.A.Mitchell, K.Drickamer, W.I.Weis
compound source
Molecule: Cd209 Antigen-Like Protein 1
Chain: A, B
Fragment: Sequence Database Residues 216-399
Synonym: Dendritic Cell-Specific Icam-3-Grabbing Nonintegri Sign2, Dc-Sign Related Protein, Dc-Signr, Liverlymph Node- Icam-3-Grabbing Nonintegrin, L-Sign;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cd209l, Cd209l1
symmetry Space Group: P 32 2 1
R_factor 0.222 R_Free 0.249
length a length b length c angle alpha angle beta angle gamma
82.050 82.050 110.260 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.25 Å
ligand NA enzyme
related structures by homologous chain: 1K9I, 1SL6
Primary referenceExtended neck regions stabilize tetramers of the receptorsDC-SIGN and DC-SIGNR., Feinberg H, Guo Y, Mitchell DA, Drickamer K, Weis WI, J Biol Chem 2004 Oct 26;. PMID:15509576
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (55 Kb) [Save to disk]
  • Biological Unit Coordinates (1xar.pdb1.gz) 99 Kb
  • Biological Unit Coordinates (1xar.pdb2.gz) 27 Kb
  • Biological Unit Coordinates (1xar.pdb3.gz) 26 Kb
  • LPC: Ligand-Protein Contacts for 1XAR
  • CSU: Contacts of Structural Units for 1XAR
  • Likely Quarternary Molecular Structure file(s) for 1XAR
  • Structure Factors (167 Kb)
  • Retrieve 1XAR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1XAR from S2C, [Save to disk]
  • Re-refined 1xar structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1XAR 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 1XAR
  • 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 1XAR, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1xara_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1xarb_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1xar from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1xar_A] [1xar] [1xar_B]
  • SWISS-PROT database: [Q9H2X3]
  • Domain organization of [CLC4M_HUMAN] by SWISSPFAM
  • Domain found in 1XAR: [CLECT ] by SMART
  • Other resources with information on 1XAR
  • Community annotation for 1XAR 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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