Characterization of histone (H1B) oxalate binding protein in experimental urolithiasis and bioinformatics approach to study its oxalate interaction

Biochemical and Biophysical Research Communications

Volumn 345, Issue 1, 2006, Pages 345-354

  Latha, P ^a   Kalaiselvi, P ^b   Varalakshmi, P ^b   Rameshkumar, G ^a  

^a ANNA UNIVERSITY   (India)

^b UNIVERSITY OF MADRAS   (India)

Author keywords

2FE2; Calcium oxalate crystals; Histone H1B; Hyperoxaluria; Oxalate binding protein; PDB; Seed crystals

Indexed keywords

BINDING PROTEIN; CALCIUM OXALATE; HISTONE H1B; LEUCINE; LYSINE; OXALATE BINDING PROTEIN; OXALIC ACID; UNCLASSIFIED DRUG; WEDDELLITE; HISTONE; NUCLEOCYTOPLASMIC TRANSPORT PROTEIN; OXALATE BINDING PROTEIN, RAT; OXALIC ACID DERIVATIVE;

AMINO ACID SEQUENCE; ANIMAL TISSUE; ARTICLE; BINDING AFFINITY; BINDING SITE; BIOINFORMATICS; COMPUTER MODEL; COMPUTER PROGRAM; CONTROLLED STUDY; CRYSTALLIZATION; HYPEROXALURIA; MALE; MICROSCOPY; NONHUMAN; PRIORITY JOURNAL; PROTEIN PROTEIN INTERACTION; RAT; UROLITHIASIS; ANIMAL; BIOLOGY; CHEMICAL MODEL; CHEMICAL STRUCTURE; CHEMISTRY; COMPUTER SIMULATION; CONFORMATION; DISEASE MODEL; METABOLISM; METHODOLOGY; MOLECULAR GENETICS; PROTEIN ANALYSIS; PROTEIN BINDING; SEQUENCE ANALYSIS; ULTRASTRUCTURE; WISTAR RAT;

AMINO ACID SEQUENCE; ANIMALS; BINDING SITES; COMPUTATIONAL BIOLOGY; COMPUTER SIMULATION; DISEASE MODELS, ANIMAL; HISTONES; MALE; MODELS, CHEMICAL; MODELS, MOLECULAR; MOLECULAR CONFORMATION; MOLECULAR SEQUENCE DATA; NUCLEOCYTOPLASMIC TRANSPORT PROTEINS; OXALATES; PROTEIN BINDING; PROTEIN INTERACTION MAPPING; RATS; RATS, WISTAR; SEQUENCE ANALYSIS, PROTEIN; URINARY CALCULI;

EID: 33745798676     PISSN: 0006291X     EISSN: 10902104     Source Type: Journal    
DOI: 10.1016/j.bbrc.2006.04.086     Document Type: Article

References (30)

1. Seethalakshmi L., Selvam R., Mahle C.J., and Menon M. Binding of oxalate to mitochondrial inner membranes of rat and kuman kidney. J. Urol. 135 (1986) 862-865
2. Selvam R., and Kannabiran K. Characterisation of nuclear oxalate binding of rat and human kidney. J. Urol. 156 (1996) 237-242
3. Selvam R., and Kalaiselvi P. Oxalate binding proteins in calcium oxalate nephrolithiasis. Urol. Res. 31 (2003) 242-256
4. Blobel G., and Porter V.R. Nuclei from rat liver: isolation method that combines purity with high yield. Science 154 (1996) 1662-1665
5. Bonner J., Chalkley G.R., Dahmus M., Fambrough D., Fujimura F., Huang R.C., Huberman J., Jensen R., Maruahige K., Ohlenbausch H., Olivera B.M., and Widholm J. Isolation and characterization of chromosomal nucleoprotein. Methods Enzymol. 12 (1968) 3-5
6. Lowry O.H., Rosebrough N.J., Farr A.L., and Randall R.J. Protein measurement with the folin-phenol reagent. J. Biol. Chem. 193 (1951) 265-274
7. Halmer L., and Gruss C. Isolation H1 by single step purification method. Nucleic Acids Res. 23 (1995) 773-778
8. 0 and its subfractions under non denaturing conditions. Biochim. Biophys. Acta 1073 (1991) 230-232
9. Laemmli U.K. Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature (Lond.) 227 (1970) 680-685
10. Fellstrom B., Danielson Bo.G., Ljunghall S., and Wikstrom B. Crystal inhibition: the effects of polyanions on calcium oxalate crystal growth. Clin. Chim. Acta 158 (1986) 229-235
11. H. Nakai, M. Yamagawa, K. Kameda, Y. Ogawa, J. Kawamura, Transformation of calcium oxalate dihydrate crystals in solution: Why is not calcium oxalate dihydrate detected in urinary calculi, Published in: symposium on Urolithiasis, Urolithiasis'96 (1996) 323-325.
12. Marti-Renom M.A., Stuart A., Fiser A., Sánchez R., Melo F., and Sali A. Comparative protein structure modeling of genes and genomes. Annu. Rev. Biophys. Biomol. Struct. 29 (2000) 291-325
13. Krieger E., Koraimann G., and Vriend G. Increasing the precision of comparative models with YASARA NOVA-a self-parameterizing force field. Proteins 15/4 3 (2002) 393-402
14. D.T. Hau Chang, Y.J. Oyang, J.H. Lin3, MEDock: a web server for efficient prediction of ligand binding sites based on a novel optimization algorithm, Nucleic Acids Res., 33 Web Server Issue (2005) W233-W238.
15. Wallace A.C., Laskowski R.A., and Thornton J.M. LIGPLOT: a program to generate schematic diagrams of protein-ligand interactions. Protein Eng. 8 (1995) 127-134
16. Adhirai M., and Selvam R. Renal calcium oxalate binding protein: studies on its properties. Kidney Int. 53 (1998) 125-129
17. Selvam R., Vijaya R., and Sivagamasundari P. Characterization of nuclear pore complex oxalate binding protein from human kidney. Mol. Cell. Biochem. 243 (2003) 1-8
18. Govindaraj A., and Selvam R. An oxalate-binding protein with crystal growth promoter activity from human kidney stone matrix. Br. J. Urol. Int. 90 (2002) 336-344
19. Selvam R., Balakrishnan S., and Kalaiselvi P. Effect of hyperoxaluria on the inhibitory activity of a 45 kDa urinary protein. Nephron 604 (2002) 1-7
20. Muthukumar A., and Selvam R. Effect of depletion of reduced glutathione and its supplementation by glutathione monoester on renal oxalate retention in hyperoxaluria. J. Nutr. Biochem. 8 (2002) 1-6
21. Norell M., and Von der Decken A. Effects of a diet low in methionine-cysteinie on rat liver chromatin and nuclear proteins. Cell. Mol. Biol. 35 (1989) 63-74
22. Schwartz S.E., Stauffer J.Q., Burgess L.W., and Cheney M. Oxalate uptake by averted sacs of rat colon- Regional differences and the effects of pH and ricinoleic acid. Biochem. Biophys. Acta 596 (1980) 404-413
23. Selvam R., and Kalaiselvi P. A novel basic protein from human kidney which inhibits calcium oxalate crystal growth. Br. J. Urol. 86 (2000) 7-13
24. Ramjee Singh M., Gaarn A., and Rothstein A. The location of disulfonic stilbene binding site in band 3, the anion transport protein of the red blood cell membrane. Biochim. Biophys. Acta 599 (1980) 127-139
25. Mannermaa R.M., and Oikarinen J. Nucleoside triphosphate binding and hydrolysis by histone H1. Biochem. Biophys. Res. Commun. 182 (1992) 309-317
26. Churchill M.E.A., and Suzuki M. 'SPKK' motifs prefer to bind to DNA at A/T-rich sites. EMBO J. 8 (1989) 4189-4195
27. Pragasam V., Kalaiselvi P., Subashini B., Sumitra K., and Varalakshmi P. Structural and functional modification of THP on nitration: comparison with stone formers THP. Nephron Physiol. 99 (2005) 28-34
28. Asokan D., Kalaiselvi P., and Varalakshmi P. Modulatory effect of the 23-kDa calcium oxalate monohydrate binding protein on calcium oxalate stone formation during oxalate stress. Nephron Physiol. 97 (2004) 23-30
29. Khan S.R. Animal models of kidney stone formation: an analysis. World J. Urol. 15 (1997) 236-243
30. Van Bruggen M.C.J., Walgreen B., Rijke T.P., Tamboer W., Kramers K., Smeenk R.J., Monestier M., Fournie G.J., and Berden J.H. Antigen specificity of anti-nuclear antibodies complexed to nucleosomes determines glomerular basement membrane binding in vivo. Eur. J. Immunol. 27 (1997) 1564-1569