2GSE Hydrolase date Apr 26, 2006
title Crystal Structure Of Human Dihydropyrimidinease-Like 2
authors D.Ogg, P.Stenmark, C.Arrowsmith, H.Berglund, R.Collins, A.Edwards S.Flodin, A.Flores, S.Graslund, B.M.Hallberg, M.Hammarstrom, T.K P.Kursula, P.Nilsson-Ehle, T.Nyman, C.Persson, J.Sagemark, M.Sun L.Holmberg-Schiavone, A.G.Thorsell, J.Uppenberg, S.Van Den Ber J.Weigelt, P.Nordlund, Structural Genomics Consortium (Sgc)
compound source
Molecule: Dihydropyrimidinase-Related Protein 2
Chain: A, B, C, D
Fragment: Dihydropyrimidinase-Like 2 (13-490)
Synonym: Drp-2, Collapsin Response Mediator Protein 2, Crmp
Ec: 3.5.2.2
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dpysl2
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pnic-Bsa4
symmetry Space Group: P 1 21 1
R_factor 0.169 R_Free 0.245
crystal
cell
length a length b length c angle alpha angle beta angle gamma
86.400 126.100 102.900 90.00 113.00 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand CA enzyme Hydrolase E.C.3.5.2.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceThe structure of human collapsin response mediator protein 2, a regulator of axonal growth., Stenmark P, Ogg D, Flodin S, Flores A, Kotenyova T, Nyman T, Nordlund P, Kursula P, J Neurochem. 2007 May;101(4):906-17. Epub 2007 Jan 22. PMID:17250651
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (315 Kb) [Save to disk]
  • Biological Unit Coordinates (2gse.pdb1.gz) 308 Kb
  • LPC: Ligand-Protein Contacts for 2GSE
  • CSU: Contacts of Structural Units for 2GSE
  • Likely Quarternary Molecular Structure file(s) for 2GSE
  • Structure Factors (1232 Kb)
  • Retrieve 2GSE in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2GSE from S2C, [Save to disk]
  • Re-refined 2gse structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2GSE 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 2GSE
  • 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 2GSE, from MSDmotif at EBI
  • Fold representative 2gse from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2gse_D] [2gse_C] [2gse_B] [2gse] [2gse_A]
  • SWISS-PROT database: [Q16555]
  • Domain organization of [DPYL2_HUMAN] by SWISSPFAM
  • Other resources with information on 2GSE
  • Community annotation for 2GSE 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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