2RDX Structural Genomics, Unknown Function date Sep 25, 2007
title Crystal Structure Of Mandelate Racemasemuconate Lactonizing From Roseovarius Nubinhibens Ism
authors Y.Patskovsky, J.Bonanno, J.M.Sauder, S.Ozyurt, M.Gilmore, C.Lau, M T.Gheyi, S.R.Wasserman, J.Koss, J.A.Gerlt, S.K.Burley, S.C.Almo, Sgx Research Center For Structural Genomics (Nysgxrc)
compound source
Molecule: Mandelate Racemasemuconate Lactonizing Enzyme, P
Chain: A, B, C, D, E, F, G, H
Engineered: Yes
 Organism_scientific: Roseovarius Nubinhibens
Organism_taxid: 89187
Strain: Ism
Gene: Ism_14070
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_vector: Pet
Expression_system_plasmid: Bc-Psgx3(Bc)
symmetry Space Group: I 2 2 2
R_factor 0.194 R_Free 0.256
crystal
cell
length a length b length c angle alpha angle beta angle gamma
169.415 169.219 223.476 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand GOL, MG enzyme
note 2RDX supersedes 2QYE
Gene ISM
Gene
Ontology
ChainFunctionProcessComponent
F, A, E, B, H, C, D, G


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (486 Kb) [Save to disk]
  • Biological Unit Coordinates (2rdx.pdb1.gz) 477 Kb
  • LPC: Ligand-Protein Contacts for 2RDX
  • CSU: Contacts of Structural Units for 2RDX
  • Likely Quarternary Molecular Structure file(s) for 2RDX
  • Structure Factors (4903 Kb)
  • Retrieve 2RDX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2RDX from S2C, [Save to disk]
  • Re-refined 2rdx structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2RDX 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 2RDX
  • 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
  • 3D motif for 2RDX, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2rdx] [2rdx_E] [2rdx_C] [2rdx_B] [2rdx_A] [2rdx_H] [2rdx_G] [2rdx_F] [2rdx_D]
  • SWISS-PROT database: [A3SNF8]
  • Domain organization of [A3SNF8_9RHOB] by SWISSPFAM
  • Domain found in 2RDX: [MR_MLE ] by SMART
    • Other resources with information on 2RDX
  • Community annotation for 2RDX 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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