1XVI Crystal Structure of YedP, phosphatase-like domain protein from Escherichia coli K12 date
authors Kim, Y., Joachimiak, A., Cymborowski, M., Skarina, T., Savchenko, A., Edwards, A., MCSG, Midwest.Center.for.Structural.Genomics.
compound source
symmetry
R_factor
R_Free 0.24334
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.26
ligand 1PE, PG4, PGE, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • phosphatase activity
  • mannosyl-3-phosphoglycerate ...


    • Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (90 Kb) [Save to disk]
  • Biological Unit Coordinates (1xvi.pdb1.gz) 85 Kb
  • LPC: Ligand-Protein Contacts for 1XVI
  • CSU: Contacts of Structural Units for 1XVI
  • Likely Quarternary Molecular Structure file(s) for 1XVI
  • Structure Factors (195 Kb)
  • Retrieve 1XVI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1XVI from S2C, [Save to disk]
  • Re-refined 1xvi structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1XVI 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 1XVI
  • 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 1XVI, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1xvia_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1xvib_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1xvi from FSSP and Dali (Families of Structurally Similar Proteins)
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1xvi_B] [1xvi_A] [1xvi]
  • SWISS-PROT database: [P76329]
  • Domain organization of [MPGP_ECOLI] by SWISSPFAM
    • Other resources with information on 1XVI
  • Community annotation for 1XVI 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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