1R0M Isomerase date Sep 22, 2003
title Structure Of Deinococcus Radiodurans N-Acylamino Acid Racema : Insights Into A Flexible Binding Pocket And Evolution Of Activity
authors W.C.Wang, W.C.Chiu, S.K.Hsu, C.L.Wu, C.Y.Chen, J.S.Liu, W.H
compound source
Molecule: N-Acylamino Acid Racemase
Chain: A, B, C, D
Engineered: Yes
 Organism_scientific: Deinococcus Radiodurans
Organism_taxid: 1299
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pqe30
symmetry Space Group: P 4
R_factor 0.154 R_Free 0.173
crystal
cell
length a length b length c angle alpha angle beta angle gamma
116.367 116.367 120.467 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.30 Å
related structures by homologous chain: 1XPY
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceStructural basis for catalytic racemization and substrate specificity of an N-acylamino acid racemase homologue from Deinococcus radiodurans., Wang WC, Chiu WC, Hsu SK, Wu CL, Chen CY, Liu JS, Hsu WH, J Mol Biol 2004 Sep 3;342(1):155-69. PMID:15313614
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (253 Kb) [Save to disk]
  • Biological Unit Coordinates (1r0m.pdb1.gz) 124 Kb
  • Biological Unit Coordinates (1r0m.pdb2.gz) 126 Kb
  • CSU: Contacts of Structural Units for 1R0M
  • Likely Quarternary Molecular Structure file(s) for 1R0M
  • Structure Factors (2887 Kb)
  • Retrieve 1R0M in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1R0M from S2C, [Save to disk]
  • Re-refined 1r0m structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1R0M 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 1R0M
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Conformational Epitope Prediction for 1R0M 1R0MA 1R0MB 1R0MC 1R0MD from the CEP Server.
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1R0M, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1r0ma1, region A:133-375 [Jmol] [rasmolscript] [script source]
        - Domain d1r0ma2, region A:6-132 [Jmol] [rasmolscript] [script source]
        - Domain d1r0mb1, region B:133-375 [Jmol] [rasmolscript] [script source]
        - Domain d1r0mb2, region B:6-132 [Jmol] [rasmolscript] [script source]
        - Domain d1r0mc1, region C:133-375 [Jmol] [rasmolscript] [script source]
        - Domain d1r0mc2, region C:6-132 [Jmol] [rasmolscript] [script source]
        - Domain d1r0md1, region D:133-375 [Jmol] [rasmolscript] [script source]
        - Domain d1r0md2, region D:6-132 [Jmol] [rasmolscript] [script source]
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1r0m] [1r0m_C] [1r0m_B] [1r0m_D] [1r0m_A]
  • SWISS-PROT database: [Q9RYA6]
  • Domain organization of [Q9RYA6_DEIRA] by SWISSPFAM
  • Domain found in 1R0M: [MR_MLE ] by SMART
    • Other resources with information on 1R0M
  • Community annotation for 1R0M 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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