4B92 Signaling Protein date Aug 31, 2012
title Crystal Structure Of Truncated Human Crmp-5 Soaked With Zn
authors R.Ponnusamy, B.Lohkamp
compound source
Molecule: Dihydropyrimidinase-Related Protein 5
Chain: A, B
Fragment: Residues 1-483
Synonym: Drp-5, Crmp3-Associated Molecule, Cram, Collapsin Mediator Protein 5, Crmp-5, Unc33-Like Phosphoprotein 6, U
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: Rosetta
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pnic-Bsa4
Other_details: Mammalian Gene Collection (Mgc)
symmetry Space Group: P 41 21 2
R_factor 0.19077 R_Free 0.25009
crystal
cell
length a length b length c angle alpha angle beta angle gamma
89.500 89.500 246.460 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.90 Å
ligand ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceInsights into the oligomerization of CRMPs: Crystal structure of human collapsin response mediator protein 5., Ponnusamy R, Lohkamp B, J Neurochem. 2013 Feb 4. doi: 10.1111/jnc.12188. PMID:23373749
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (153 Kb) [Save to disk]
  • Biological Unit Coordinates (4b92.pdb1.gz) 295 Kb
  • Biological Unit Coordinates (4b92.pdb2.gz) 293 Kb
  • LPC: Ligand-Protein Contacts for 4B92
  • CSU: Contacts of Structural Units for 4B92
  • Structure Factors (730 Kb)
  • Retrieve 4B92 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4B92 from S2C, [Save to disk]
  • Re-refined 4b92 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4B92 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 4B92
  • 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 4B92, from MSDmotif at EBI
  • Fold representative 4b92 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4b92] [4b92_B] [4b92_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4B92
  • Community annotation for 4B92 at PDBWiki (http://pdbwiki.org)

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