1LIT

HUMAN LITHOSTATHINE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.55 Å
  • R-Value Free: 0.240 
  • R-Value Work: 0.180 
  • R-Value Observed: 0.180 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Crystal structure of human lithostathine, the pancreatic inhibitor of stone formation.

Bertrand, J.A.Pignol, D.Bernard, J.P.Verdier, J.M.Dagorn, J.C.Fontecilla-Camps, J.C.

(1996) EMBO J 15: 2678-2684

  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • Human lithostathine (HLIT) is a pancreatic glycoprotein which inhibits the growth and nucleation of calcium carbonate crystals. The crystal structure of the monomeric 17 kDa HLIT, determined to a resolution of 1.55 angstroms, was refined to a crystal ...

    Human lithostathine (HLIT) is a pancreatic glycoprotein which inhibits the growth and nucleation of calcium carbonate crystals. The crystal structure of the monomeric 17 kDa HLIT, determined to a resolution of 1.55 angstroms, was refined to a crystallographic R-factor of 18.6%. Structural comparison with the carbohydrate-recognition domains of rat mannose-binding protein and E-selectin indicates that the C-terminal domain of HLIT shares a common architecture with the C-type lectins. Nevertheless, HLIT does not bind carbohydrate nor does it contain the characteristic calcium-binding sites of the C-type lectins. In consequence, HLIT represents the first structurally characterized member of this superfamily which is not a lectin. Analysis of the charge distribution and calculation of its dipole moment reveal that HLIT is a strongly polarized molecule. Eight acidic residues which are separated by regular 6 angstrom spacings form a unique and continuous patch on the molecular surface. This arrangement coincides with the distribution of calcium ions on certain planes of the calcium carbonate crystal; the dipole moment of HLIT may play a role in orienting the protein on the crystal surface prior to the more specific interactions of the acidic residues.


    Related Citations: 
    • Crystallization and Preliminary Crystallographic Study of Human Lithostathine
      Pignol, D., Bertrand, J.A., Bernard, J.P., Verdier, J.M., Dagorn, J.C., Fontacilla-Camps, J.C.
      (1995) Proteins 23: 604
    • Inhibition of Nucleation and Crystal Growth of Calcium Carbonate Crystals by Human Lithostathine
      Bernard, J.P., Adrich, Z., Montalto, G., Decaro, A., De Reggi, M., Sarles, H., Dagorn, J-C.
      (1992) Gastroenterology 103: 1277
    • Homology of Human Pancreatic Stone Protein with Animal Lectins
      Patthy, L.
      (1988) Biochem J 253: 309

    Organizational Affiliation

    Laboratoire de Cristallographie et Cristallogénèse des Protéines, Institut de Biologie Structurale J.P. Ebel, CEA-CNRS, France.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
LITHOSTATHINE
A
144Homo sapiensMutation(s): 0 
Gene Names: REG1APSPSPSPS1REG
Find proteins for P05451 (Homo sapiens)
Go to UniProtKB:  P05451
NIH Common Fund Data Resources
PHAROS  P05451
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.55 Å
  • R-Value Free: 0.240 
  • R-Value Work: 0.180 
  • R-Value Observed: 0.180 
  • Space Group: P 65
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 47.19α = 90
b = 47.19β = 90
c = 108.66γ = 120
Software Package:
Software NamePurpose
MOSFLMdata reduction
CCP4data reduction
X-PLORmodel building
X-PLORrefinement
CCP4data scaling
X-PLORphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1997-01-11
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance