2VM8 Signaling Protein date Jan 24, 2008
title Human Crmp-2 Crystallised In The Presence Of Mg
authors P.Kursula
compound source
Molecule: Dihydropyrimidinase-Related Protein 2
Chain: A, B, C, D
Fragment: Residues 13-490
Synonym: Collapsin Response Mediator Protein 2, Drp-2, Crmp
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_vector_type: Plasmid
Expression_system_plasmid: Pnic-Bsa4
symmetry Space Group: P 21 21 21
R_factor 0.256 R_Free 0.325
length a length b length c angle alpha angle beta angle gamma
86.510 126.240 209.750 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand MG enzyme
A, D, C, B

Primary referenceCrystal and solution structure, stability and post-translational modifications of collapsin response mediator protein 2., Majava V, Loytynoja N, Chen WQ, Lubec G, Kursula P, FEBS J. 2008 Aug 11. PMID:18699782
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (338 Kb) [Save to disk]
  • Biological Unit Coordinates (2vm8.pdb1.gz) 331 Kb
  • LPC: Ligand-Protein Contacts for 2VM8
  • CSU: Contacts of Structural Units for 2VM8
  • Likely Quarternary Molecular Structure file(s) for 2VM8
  • Structure Factors (1377 Kb)
  • Retrieve 2VM8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2VM8 from S2C, [Save to disk]
  • Re-refined 2vm8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2VM8 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 2VM8
  • 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 2VM8, from MSDmotif at EBI
  • Fold representative 2vm8 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2vm8_C] [2vm8_D] [2vm8_A] [2vm8] [2vm8_B]
  • SWISS-PROT database: [Q16555]
  • Domain organization of [DPYL2_HUMAN] by SWISSPFAM
  • Other resources with information on 2VM8
  • Community annotation for 2VM8 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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