2XS6 Transferase date Sep 24, 2010
title Crystal Structure Of The Rhogap Domain Of Human Pik3r2
authors L.Tresaugues, M.Welin, C.H.Arrowsmith, H.Berglund, C.Bountra, R.C A.M.Edwards, S.Flodin, A.Flores, S.Graslund, M.Hammarstrom, I.Jo T.Karlberg, S.Kol, T.Kotenyova, E.Kouznetsova, M.Moche, T.Nyman, C.Persson, H.Schuler, P.Schutz, M.I.Siponen, A.G.Thorsell, S.Van Der Berg, E.Wahlberg, J.Weigelt, P.Nordlund
compound source
Molecule: Phosphatidylinositol 3-Kinase Regulatory Subunit
Chain: A
Fragment: Rhogap Domain, Residues 108-298
Synonym: Phosphatidylinositol 3-Kinase 85 Kda Regulatory Su Beta, Ptdins-3-Kinase Regulatory Subunit Beta, Pi3-Kinase Regulatory Subunit Beta, Pi3k Regulatory Subunit Beta, Ptdins-3-Kinase Regulatory Subunit P85-Beta, Pi3-Kinase Su P85-Beta;
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)R3 Prare
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pnic-Bsa4
symmetry Space Group: C 1 2 1
R_factor 0.19149 R_Free 0.23980
crystal
cell
length a length b length c angle alpha angle beta angle gamma
94.661 34.354 71.317 90.00 130.88 90.00
method X-Ray Diffractionresolution 2.09 Å
ligand CL enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceThe structure and catalytic mechanism of Human Sphingomyelin Phosphodiesterase like 3a - an acid sphingomyelinase homolog with a novel nucleotide hydrolase activity., Lim SM, Yeung K, Tresaugues L, Ling TH, Nordlund P, FEBS J. 2016 Jan 18. doi: 10.1111/febs.13655. PMID:26783088
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (63 Kb) [Save to disk]
  • Biological Unit Coordinates (2xs6.pdb1.gz) 114 Kb
  • LPC: Ligand-Protein Contacts for 2XS6
  • CSU: Contacts of Structural Units for 2XS6
  • Structure Factors (239 Kb)
  • Retrieve 2XS6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2XS6 from S2C, [Save to disk]
  • Re-refined 2xs6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2XS6 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 2XS6
  • 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 2XS6, from MSDmotif at EBI
  • Fold representative 2xs6 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2xs6] [2xs6_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 2XS6: [RhoGAP ] by SMART
  • Other resources with information on 2XS6
  • Community annotation for 2XS6 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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