1IXG

PHOSPHATE-BINDING PROTEIN MUTANT WITH THR 141 REPLACED BY ASP (T141D), COMPLEXED WITH PHOSPATE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.05 Å
  • R-Value Free: 0.139 
  • R-Value Observed: 0.109 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

A low energy short hydrogen bond in very high resolution structures of protein receptor--phosphate complexes.

Wang, Z.Luecke, H.Yao, N.Quiocho, F.A.

(1997) Nat Struct Biol 4: 519-522

  • DOI: 10.1038/nsb0797-519
  • Primary Citation of Related Structures:  
    1IXG, 1IXI, 1IXH

  • PubMed Abstract: 
  • A very short hydrogen bond between an Asp and a phosphate is established in two high resolution structures (0.98 and 1.05 A). A mutant complex that changes the Asp to an Asn, which forms a normal hydrogen bond, has a similar free energy of binding to the wild type complex, suggesting that the contribution of the short hydrogen bond is not extraordinarily strong ...

    A very short hydrogen bond between an Asp and a phosphate is established in two high resolution structures (0.98 and 1.05 A). A mutant complex that changes the Asp to an Asn, which forms a normal hydrogen bond, has a similar free energy of binding to the wild type complex, suggesting that the contribution of the short hydrogen bond is not extraordinarily strong.


    Related Citations: 
    • Negative Electrostatic Surface Potential of Protein Sites Specific for Anionic Ligands
      Ledvina, P.S., Yao, N., Choudhary, A., Quiocho, F.A.
      (1996) Proc Natl Acad Sci U S A 93: 6786
    • Modulation of a Salt Link Does not Affect Binding of Phosphate to its Specific Active Transport Receptor
      Yao, N., Ledvina, P.S., Choudhary, A., Quiocho, F.A.
      (1996) Biochemistry 35: 2079
    • Fine Tuning the Specificity of the Periplasmic Phosphate Transport Receptor. Site-Directed Mutagenesis, Ligand Binding, and Crystallographic Studies
      Wang, Z., Choudhary, A., Ledvina, P.S., Quiocho, F.A.
      (1994) J Biol Chem 269: 25091
    • The Immunodominant 38-kDa Lipoprotein Antigen of Mycobacterium Tuberculosis is a Phosphate-Binding Protein
      Chang, Z., Choudhary, A., Lathigra, R., Quiocho, F.A.
      (1994) J Biol Chem 269: 1956
    • High Specificity of a Phosphate Transport Protein Determined by Hydrogen Bonds
      Luecke, H., Quiocho, F.A.
      (1990) Nature 347: 402

    Organizational Affiliation

    RIKEN Yokoyama Laboratory, Yokohama, 230-0045, Japan.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
PHOSPHATE-BINDING PROTEINA321Escherichia coliMutation(s): 1 
Gene Names: PHO-S
UniProt
Find proteins for P0AG82 (Escherichia coli (strain K12))
Explore P0AG82 
Go to UniProtKB:  P0AG82
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PO4
Query on PO4

Download Ideal Coordinates CCD File 
B [auth A]PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.05 Å
  • R-Value Free: 0.139 
  • R-Value Observed: 0.109 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 41.645α = 90
b = 63.493β = 90
c = 123.788γ = 90
Software Package:
Software NamePurpose
SHELXL-96model building
SHELXL-96refinement
DENZOdata reduction
SCALEPACKdata scaling
SHELXL-96phasing

Structure Validation

View Full Validation Report




Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1998-02-04
    Type: Initial release
  • Version 1.1: 2008-03-21
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance