5J0B Immune System date Mar 28, 2016
title Structure Of The Immune Receptor Cd33 In Complex With 6'-Sia
authors R.B.Dodd
compound source
Molecule: Myeloid Cell Surface Antigen Cd33
Chain: A, B, C, D
Fragment: Unp Residues 21-232
Synonym: Sialic Acid-Binding Ig-Like Lectin 3,Siglec-3,Gp67
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cd33, Siglec3
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek 293-F
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Phlsec
symmetry Space Group: P 21 21 21
R_factor 0.229 R_Free 0.251
crystal
cell
length a length b length c angle alpha angle beta angle gamma
64.490 123.680 141.600 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.48 Å
ligand GAL, NAG, PG0, SIA enzyme
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (426 Kb) [Save to disk]
  • Biological Unit Coordinates (5j0b.pdb1.gz) 206 Kb
  • Biological Unit Coordinates (5j0b.pdb2.gz) 212 Kb
  • LPC: Ligand-Protein Contacts for 5J0B
  • CSU: Contacts of Structural Units for 5J0B
  • Structure Factors (2476 Kb)
  • Retrieve 5J0B in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5J0B from S2C, [Save to disk]
  • Re-refined 5j0b structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5J0B 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 5J0B
  • 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
  • Fold representative 5j0b from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5j0b] [5j0b_B] [5j0b_A] [5j0b_C] [5j0b_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5J0B
  • Community annotation for 5J0B at PDBWiki (http://pdbwiki.org)

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