3A52

Crystal structure of cold-active alkailne phosphatase from psychrophile Shewanella sp.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.183 

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This is version 1.3 of the entry. See complete history


Literature

Crystal structure of cold-active alkaline phosphatase from the psychrophile Shewanella sp.

Tsuruta, H.Mikami, B.Higashi, T.Aizono, Y.

(2010) Biosci Biotechnol Biochem 74: 69-74

  • DOI: 10.1271/bbb.90563
  • Primary Citation of Related Structures:  
    3A52

  • PubMed Abstract: 
  • The crystal structure of a cold-active alkaline phosphatase from a psychrophile, Shewanella sp. (SCAP), was solved at 2.2 A. A refined model showed a homodimer with six metal-ligand sites. The arrangement of the catalytic residues resembled those of ...

    The crystal structure of a cold-active alkaline phosphatase from a psychrophile, Shewanella sp. (SCAP), was solved at 2.2 A. A refined model showed a homodimer with six metal-ligand sites. The arrangement of the catalytic residues resembled those of alkaline phosphatases (APs), suggesting that the reaction mechanism of SCAP was fundamentally identical to those of other APs. SCAP had two distinct structural features: (i) a loop with Arg122 that bound to the phosphate moiety of the substrate suffered no constraints from the linkage to other secondary structures, and (ii) Mg3-ligand His109 was considered to undergo repulsive effect with neighboring Trp228. The local flexibility led by these features might be an important factor in the high catalytic efficiency of SCAP at low temperatures.


    Organizational Affiliation

    Office of Collaborative Research and Technology Development, Kobe University, Hyogo, Japan.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Cold-active alkaline phosphataseAB400Shewanella sp. AP1Mutation(s): 0 
Gene Names: scap
Find proteins for Q8RQU7 (Shewanella sp. AP1)
Explore Q8RQU7 
Go to UniProtKB:  Q8RQU7
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.183 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 64.059α = 90
b = 95.863β = 101.62
c = 71.058γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
CNSrefinement
PDB_EXTRACTdata extraction
HKL-2000data collection
HKL-2000data reduction
CNSphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-04-14
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2017-10-11
    Changes: Refinement description
  • Version 1.3: 2019-10-09
    Changes: Data collection, Database references