Osteoactivin bioinformatic analysis: Prediction of novel functions, structural features, and modes of action

Medical Science Monitor

Volumn 15, Issue 2, 2009, Pages

  Selim, Abdulhafez A ^a  

^a Osteotech Inc   (United States)

Author keywords

3D model; Bioinformatics; Motif finding

Indexed keywords

ACTIVIN; CYCLINE; GLYCOSAMINOGLYCAN; MITOGEN ACTIVATED PROTEIN KINASE; OSTEOACTIVIN; PHOSPHORYLASE KINASE; TYROSINE; UNCLASSIFIED DRUG; GPNMB PROTEIN, RAT; MEMBRANE PROTEIN;

AMIDATION; ANTIGEN PRESENTATION; ARTICLE; B LYMPHOCYTE ACTIVATION; BIOINFORMATICS; BLOOD PRESSURE REGULATION; CARBOXY TERMINAL SEQUENCE; CELL DIFFERENTIATION; ENDOTHELIUM CELL; ENZYME ACTIVITY; GENE EXPRESSION; GLYCOSYLATION; HEME SYNTHESIS; IMMUNE RESPONSE; LUNG DEVELOPMENT; MELANOGENESIS; MOLECULAR MODEL; PDZ DOMAIN; PROTEIN FUNCTION; PROTEIN LOCALIZATION; PROTEIN MOTIF; PROTEIN SECONDARY STRUCTURE; PROTEIN STRUCTURE; AMINO ACID SEQUENCE; ANIMAL; BIOLOGY; CHEMICAL STRUCTURE; CHEMISTRY; COMPUTER PROGRAM; DNA MICROARRAY; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENETICS; INTERNET; METABOLISM; METHODOLOGY; MOLECULAR GENETICS; PROTEIN TERTIARY STRUCTURE; RAT;

AMINO ACID MOTIFS; AMINO ACID SEQUENCE; ANIMALS; COMPUTATIONAL BIOLOGY; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; INTERNET; MEMBRANE GLYCOPROTEINS; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PROTEIN STRUCTURE, SECONDARY; PROTEIN STRUCTURE, TERTIARY; RATS; SOFTWARE;

EID: 63449114640     PISSN: 12341010     EISSN: 16433750     Source Type: Journal    
DOI: None     Document Type: Article

References (54)

1. Marks SC Jr, Popoff SN. Osteoclast biology in the osteopetrotic (op) rat. Am J Anat, 1989; 86: 325-34
2. Safadi FF, Xu J, Smock SL et al: Cloning and characterization of osteo- activin, a novel cDNA expressed in osteoblasts. J Cell Biochem, 2001; 84: 12-26
3. Weterman MA, Ajubi N, van Dinter IM et al: nmb, a novel gene, is expressed in low-metastatic human melanoma cell lines and xenografts. Int J Cancer, 1995; 60: 73-81
4. Bachner D, Schroder D, Gross G: mRNA expression of the murine gly- coprotein (transmembrane) nmb (Gpnmb) gene is linked to the developing retinal pigment epithelium and iris. Brain Res Gene Expr Patterns, 2002; 1(3-4): 159-65
5. Kwon BS, Kim KK, Halaban R, Pickard RT: Characterization of mouse Pmel 17 gene and silver locus. Pigment Cell Res, 1994; 7: 394-97
6. Shikano S, Bonkobara M, Zukas PK, Ariizumi K Molecular cloning of a dendritic cell-associated transmembrane protein, DC-HIL that promotes RGD-dependent adhesion of endothelial cells through recognition of heparan sulfate proteoglycans. J Biol Chem, 2001; 276: 8125-34
7. Rose AA, Siegel PM: Osteoactivin/HGFIN: is it a tumor suppressor or mediator of metastasis in breast cancer? Breast Cancer Res, 2007; 9(6): 403
8. Rose AA, Pepin F, Russo C et al: Osteoactivin promotes breast cancer metastasis to bone. Mol Cancer Res, 2007; 5(10): 1001-14
9. Rich JN, Shi Q, Hjelmeland M et al: Bone-related genes expressed in advanced malignancies induce invasion and metastasis in a genetically defined human cancer model. J Biol Chem, 2003; 278(18): 15951-57
10. Metz RL, Yehia G, Fernandes H et al: Cloning and characterization of the 5' flanking region of the HGFIN gene indicate a cooperative role among p53 and cytokine-mediated transcription factors: relevance to cell cycle regulation. Cell Cycle, 2005; 4(2): 315-22
11. Furochi H, Tamura S, Takeshima K et al: Overexpression of osteoac- tivin protects skeletal muscle from severe degeneration caused by long- term denervation in mice. J Med Invest, 2007; 54(3-4): 248-54
12. Ogawa T, Nikawa T, Furochi H et al: Osteoactivin upregulates expression of MMP-3 and MMP-9 in fibroblasts infiltrated into denervated skeletal muscle in mice. Am J Physiol Cell Physiol, 2005; 289(3): C697-707
13. Furochi H, Tamura S, Mameoka M et al: Osteoactivin fragments produced by ectodomain shedding induce MMP-3 expression via ERK pathway in mouse NIH-3T3 fibroblasts. FEBS Lett, 2007; 581(30): 5743-50
14. Nakamura A, Ishii A, Ohata C, Komurasaki T: Early induction of os- teoactivin expression in rat renal tubular epithelial cells after unilateral urethral obstruction. Exp Toxicol Pathol, 2007; 59(1): 53-59
15. Abe H, Uto H, Takami Y et al: Transgenic expression of osteoactivin in the liver attenuates hepatic fibrosis in rats. Biochem Biophys Res Commun, 2007; 356(3): 610-15
16. Onaga M, Ido A, Hasuike S et al: Osteoactivin expressed during cirrhosis development in rats fed a choline-deficient, L-amino acid-defined diet, accelerates motility of hepatoma cells. J Hepatol, 2003; 39(5): 779-85
17. Selim AA, Abdelmagid SM, Kanaan RA et al: Anti-osteoactivin antibody inhibits osteoblast differentiation and function in vitro. Crit Rev Eukaryot Gene Expr, 2003; 13(2-4): 265-75
18. Selim AA, Castaneda JL, Owen TA et al: The role of osteoactivin-derived peptides in osteoblast differentiation. Med Sci Monit, 2007; 13(12): BR259-70
19. Abdelmagid SM, Barbe MF, Arango-Hisijara I et al: Osteoactivin acts as downstream mediator of BMP-2 effects on osteoblast function. J Cell Physiol, 2007; 210(1): 26-37
20. Sheng MH, Wergedal JE, Mohan S, Lau KH: Osteoactivin is a novel os- teoclastic protein and plays a key role in osteoclast differentiation and activity. FEBS Lett, 2008; 582(10): 1451-58
21. Kapushesky M, Kemmeren P, Culhane AC et al: Expression Profiler: next generation-an online platform for analysis of microarray data. Nucleic Acids Research, 2004; 32
22. Wettenhall JM, Smyth GK limmaGUI: a graphical user interface for linear modeling of microarray data. Bioinformatics, 2004; 20(18): 3705-6
23. Juhl Jensen L, Gupta R, Blom N et al: Ab initio prediction of human orphan protein function from post-translational modifications and localization features. J Mol Biol, 2002; 319: 1257-65
24. th Annual International Conference on Intelligent Systems for Molecular Biology, 2005; 117
25. Finn RD, Mistry J, Schuster-Bockler B et al: Clans, web tools and services. Bateman Nucleic Acids Research, 2006; Database Issue 34: D247-D51
26. Hulo N, Bairoch A, Bulliard V et al: The 20 years of PROSITE. Nucleic Acids Res, 2007
27. Schultz J, Copley RR, Doerks T et al: SMART: A Web-based tool for the study of genetically mobile domains. Nucleic Acids Res, 2000; 28: 231-34
28. Puntervoll P, Linding R, Gemiind C et al: ELM server: a new resource for investigating short functional sites in modular eukaryotic proteins. Nucleic Acids Res, 2003; 31: 3625-30
29. Deleage G, Blanchet C, Geourjon C: Secondary consensus prediction Protein structure prediction. Implications for the biologist. Biochimie, 1997; 79(11): 681-86
30. Combet C, Jambon M, Deleage G, Geourjon C: Geno3D an automated protein modelling Web server, Bioinformatics, 2002; 18: 213-14
31. Guex N, Peitsch MC: SWISS-MODEL and the Swiss-PdbViewer: An environment for comparative protein modeling. Electrophoresis, 1997; 18: 2714-23
32. Sazinsky MH, Bard J, Di Donato A, Lippard SJ: Crystal Structure of the Toluene/o-Xylene Monooxygenase Hydroxylase from Pseudomonas stutzeri OX1: Insight into the substrate specificity, substrate channeling, and active site tuning of multicomponent monooxygenases. J Biol Chem, 2004; 279: 30600-10
33. Jing H, Takagi J, Liu J et al: Archaeal Surface Layer Proteins Contain beta Propeller, PKD, and beta Helix Domains and Are Related to Metazoan Cell Surface Proteins. Structure, 2002; 10: 1453-64
34. Tanaka N, Arai J, Inokuchi N et al: Crystal structure of a plant ribonu-clease, RNase LE. J Mol Biol, 2000; 298: 859-73
35. Chung JS, Sato K, Dougherty II et al: DC-HIL is a negative regulator of T lymphocyte activation. Blood, 2007; 109(10): 4320-27
36. Hughes J, Ward CJ, Peral B et al: The polycystic kidney disease 1 (PKD1) gene encodes a novel protein with multiple cell recognition domains. Nat Genet, 1995; 10: 151-60
37. Callebaut I, Gilges D, Vigon I, Mornon J-P: HYR, an extracellular module involved in cellular adhesion and related to the immunoglobulin-like fold. Protein Sci, 2000; 9: 1382-90
38. Bycroft M, Bateman A, Clarke J et al: The structure of a PKD domain from polycystin-1: implications for polycystic kidney disease. EMBO J, 1999; 18: 297-305
39. Chow KM, Csuhai E, Juliano MA et al: Studies on the subsite specificity of rat nardilysin (N-arginine dibasic convertase). J Biol Chem, 2000; 275(26): 19545-51
40. Thiele EA, Marek KL, Eipper BA: Tissue-specific regulation of peptidyl- glycine alpha-amidating monooxygenase expression. Endocrinology, 1989; 125(5): 2279-88
41. Hardingham TE, Fosang AJ, Dudhia J: The structure, function and turnover of aggrecan, the large aggregating proteoglycan from cartilage. Eur J Clin Chem Clin Biochem, 1994; 32(4): 249-57
42. Apweiler R, Hermjakob H, Sharon N: On the frequency of protein glycosylation, as deduced from analysis of the SWISS-PROT database. Biochim Biophys Acta, 1999; 1473(1): 4-8
43. Johanning K, Juliano MA, Juliano L et al: Specificity of prohormone convertase 2 on proenkephalin and proenkephalin-related substrates. J Biol Chem, 1998; 273(35): 22672-80
44. Lowe ED, Tews I, Cheng KY et al: Specificity Determinants of Recruitment Peptides Bound to Phospho-CDK2/Cyclin A. Biochemistry 2002; 41(52): 15625-34
45. Biondi RM, Nebreda AR: Signalling specificity of Ser/Thr protein kinases through docking-site-mediated interactions. Biochem J, 2003; 372: 1-13
46. Bardwell L: Mechanisms of MAPK signalling specificity. Biochem Soc Trans, 2006; 34: 837-41
47. Hung AY, Sheng M: PDZ domains: structural modules for protein complex assembly. J Biol Chem, 2002; 277(8): 5699-702
48. Jope RS, Roh MS: Glycogen synthase kinase-3 (GSK3) in psychiatric diseases and therapeutic interventions. Curr Drug Targets, 2006; 7(11): 1421-34
49. Brushia RJ, Walsh DA: Phosphorylase kinase: the complexity of its regulation is reflected in the complexity of its structure. Front Biosci, 1999; 4: D618-41
50. Dorsey FC, Muthusamy T, Whitt MA, Cox JV: A novel role for a YXXPhi motif in directing the caveolin-dependent sorting of membrane-spanning proteins. J Cell Sci, 2007; 120(Pt 15): 2544-54
51. Dietrich J, Kastrup J, Nielsen BL et al: Regulation and function of the CD3 gamma DxxxLL motif: a binding site for adaptor protein-1 and adaptor protein-2 in vitro. J Cell Biol, 1997; 138(2): 271-81
52. Grande SM, Bannish G, Fuentes-Panana EM et al: Tonic B-cell and viral ITAM signaling: context is everything. Immunol Rev, 2007; 218: 214-34
53. Adema GJ, de Boer AJ, Vogel AM et al: Molecular characterization of the melanocyte lineage-specific antigen gp100. J Biol Chem, 1994; 269(31): 20126-33
54. Tse KF, Jeffers M, Pollack VA et al: CR011, a fully human monoclonal antibody-auristatin E conjugate, for the treatment of melanoma. Clin Cancer Res, 2006; 12: 1373-82