1M5Y Isomerase, Cell Cycle date Jul 10, 2002
title Crystallographic Structure Of Sura, A Molecular Chaperone Th Facilitates Outer Membrane Porin Folding
authors E.Bitto, D.B.Mckay
compound source
Molecule: Survival Protein Sura
Chain: A, B, C, D
Synonym: Survival Protein; Peptidyl-Prolyl Cis-Trans Isomer Ppiase; Rotamase C;
Ec: 5.2.1.8
Engineered: Yes
 Organism_scientific: Escherichia Coli
Organism_taxid: 562
Gene: Sura
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ptyb2
symmetry Space Group: F 2 2 2
R_factor 0.228 R_Free 0.283
crystal
cell
length a length b length c angle alpha angle beta angle gamma
158.817 223.406 279.721 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.00 Å
ligand
enzyme Isomerase E.C.5.2.1.8 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B
  • peptidyl-prolyl cis-trans is...


    • Primary referenceCrystallographic structure of SurA, a molecular chaperone that facilitates folding of outer membrane porins., Bitto E, McKay DB, Structure (Camb) 2002 Nov;10(11):1489-98. PMID:12429090
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (226 Kb) [Save to disk]
  • Biological Unit Coordinates (1m5y.pdb1.gz) 219 Kb
  • CSU: Contacts of Structural Units for 1M5Y
  • Likely Quarternary Molecular Structure file(s) for 1M5Y
  • Structure Factors (397 Kb)
  • Retrieve 1M5Y in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1M5Y from S2C, [Save to disk]
  • Re-refined 1m5y structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1M5Y 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 1M5Y
  • 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 1M5Y, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1m5ya2, region A:172-278 [Jmol] [rasmolscript] [script source]
        - Domain d1m5ya1, region A:25-164,A:395-427 [Jmol] [rasmolscript] [script source]
        - Domain d1m5ya3, region A:279-386 [Jmol] [rasmolscript] [script source]
        - Domain d1m5yb2, region B:172-274 [Jmol] [rasmolscript] [script source]
        - Domain d1m5yb1, region B:25-163,B:396-427 [Jmol] [rasmolscript] [script source]
        - Domain d1m5yb3, region B:283-385 [Jmol] [rasmolscript] [script source]
        - Domain d1m5yc2, region C:172-273 [Jmol] [rasmolscript] [script source]
        - Domain d1m5yc1, region C:25-163,C:396-427 [Jmol] [rasmolscript] [script source]
        - Domain d1m5yc3, region C:283-385 [Jmol] [rasmolscript] [script source]
        - Domain d1m5yd2, region D:172-278 [Jmol] [rasmolscript] [script source]
        - Domain d1m5yd1, region D:25-163,D:396-428 [Jmol] [rasmolscript] [script source]
        - Domain d1m5yd3, region D:279-388 [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1m5y] [1m5y_C] [1m5y_D] [1m5y_B] [1m5y_A]
  • SWISS-PROT database: [P0ABZ6]
  • Domain organization of [SURA_ECOLI] by SWISSPFAM
    • Other resources with information on 1M5Y
  • Community annotation for 1M5Y 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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