4OUM Signaling Protein date Feb 18, 2014
title Crystal Structure Of Human Caprin-2 C1q Domain
authors X.Song, L.Li
compound source
Molecule: Caprin-2
Chain: A
Fragment: Unp Residues 996-1127
Synonym: C1q Domain-Containing Protein 1, Cytoplasmic Activationproliferation-Associated Protein 2, Gastric Canc Multidrug Resistance-Associated Protein, Protein Eeg-1, Rna Protein 140;
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: C1qdc1, Caprin2, Eeg1, Kiaa1873, Rng140
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21-Codonplus-Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28a
symmetry Space Group: H 3
R_factor 0.186 R_Free 0.216
crystal
cell
length a length b length c angle alpha angle beta angle gamma
77.499 77.499 53.451 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.49 Å
ligand FLC, IPA, PG4 enzyme
Primary referenceStructural insights into the C1q domain of Caprin-2 in canonical Wnt signaling., Miao H, Jia Y, Xie S, Wang X, Zhao J, Chu Y, Zhou Z, Shi Z, Song X, Li L, J Biol Chem. 2014 Dec 5;289(49):34104-13. doi: 10.1074/jbc.M114.591636. Epub 2014, Oct 20. PMID:25331957
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (30 Kb) [Save to disk]
  • Biological Unit Coordinates (4oum.pdb1.gz) 73 Kb
  • LPC: Ligand-Protein Contacts for 4OUM
  • CSU: Contacts of Structural Units for 4OUM
  • Structure Factors (298 Kb)
  • Retrieve 4OUM in mmCIF format [Save to disk]
  • Re-refined 4oum structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4OUM 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 4OUM
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4OUM, from MSDmotif at EBI
  • Fold representative 4oum from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4oum_A] [4oum]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4OUM: [C1Q ] by SMART
  • Other resources with information on 4OUM
  • Community annotation for 4OUM at PDBWiki (http://pdbwiki.org)

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