A nested leucine rich repeat (LRR) domain: The precursor of LRRs is a ten or eleven residue motif

BMC Microbiology

Volumn 10, Issue , 2010, Pages

  Matsushima, Norio ^a   Miyashita, Hiroki ^a   Mikami, Tomoko ^a,b,c   Kuroki, Yoshio ^c  

^a SAPPORO MEDICAL UNIVERSITY   (Japan)

^b SAPPORO CITY UNIVERSITY   (Japan)

^c SAPPORO MEDICAL UNIVERSITY SCHOOL OF MEDICINE   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID; BACTERIAL PROTEIN; LEUCINE;

AMINO ACID SEQUENCE; ARTICLE; BACTEROIDES; BIFIDOBACTERIUM; CLOSTRIDIUM; CYTOPHAGA; ESCHERICHIA; FLAVOBACTERIUM; LEUCINE RICH REPEAT; LISTERIA; NONHUMAN; PHOTOBACTERIUM; PORPHYROMONAS; PROTEIN STRUCTURE; SEQUENCE HOMOLOGY; SHEWANELLA; SHIGELLA; TREPONEMA; VIBRIO; BACTERIUM; CHEMISTRY; CONSENSUS SEQUENCE; GENETICS; MOLECULAR EVOLUTION; MOLECULAR GENETICS; PROTEIN MOTIF; PROTEIN TERTIARY STRUCTURE;

BACTERIA (MICROORGANISMS); EUKARYOTA;

AMINO ACID MOTIFS; AMINO ACID SEQUENCE; BACTERIA; BACTERIAL PROTEINS; CONSENSUS SEQUENCE; EVOLUTION, MOLECULAR; LEUCINE; MOLECULAR SEQUENCE DATA; PROTEIN STRUCTURE, TERTIARY; REPETITIVE SEQUENCES, AMINO ACID;

EID: 77956491889     PISSN: 14712180     EISSN: 14712180     Source Type: Journal    
DOI: 10.1186/1471-2180-10-235     Document Type: Article

References (39)

1. Pfam: a domain-centric method for analyzing proteins and proteomes. J Mistry R Finn, Methods Mol Biol 2007 396 43 58 full-text 18025685
2. The leucine-rich repeat: a versatile binding motif. B Kobe J Deisenhofer, Trends Biochem Sci 1994 19 10 415 421 10.1016/0968-0004(94)90090-6 7817399
3. The leucine-rich repeat as a protein recognition motif. B Kobe AV Kajava, Curr Opin Struct Biol 2001 11 6 725 732 10.1016/S0959-440X(01)00266-4 11751054
4. Leucine-Rich Repeats (LRRs): Structure, Function, Evolution and Interaction with Ligands. N Matsushima P Enkhbayar M Kamiya M Osaki R Kretsinger, Drug Design Reviews 2005 2 4 305 322 10.2174/1567269054087613 (Pubitemid 41195669)
5. Structural analysis of leucine-rich-repeat variants in proteins associated with human diseases. N Matsushima N Tachi Y Kuroki P Enkhbayar M Osaki M Kamiya RH Kretsinger, Cell Mol Life Sci 2005 62 23 2771 2791 10.1007/s00018-005-5187-z 16231091
6. The leucine-rich repeat structure. J Bella KL Hindle PA McEwan SC Lovell, Cell Mol Life Sci 2008 65 15 2307 2333 10.1007/s00018-008-8019-0 18408889
7. Structural diversity of leucine-rich repeat proteins. AV Kajava, J Mol Biol 1998 277 3 519 527 10.1006/jmbi.1998.1643 9533877
8. Classification of tandem leucine-rich repeats within a great variety of proteins. T Ohyanagi N Matsushima, FASEB J 1997 11 949
9. Origin and evolution of GALA-LRR, a new member of the CC-LRR subfamily: from plants to bacteria? AV Kajava M Anisimova N Peeters, PLoS One 2008 3 2 1694 10.1371/journal.pone.0001694 18301771
10. Leucine-rich repeat receptor kinases in plants: structure, function, and signal transduction pathways. KU Torii, Int Rev Cytol 2004 234 1 46 full-text 15066372
11. Structure-function analysis of cf-9, a receptor-like protein with extracytoplasmic leucine-rich repeats. RA van der Hoorn BB Wulff S Rivas MC Durrant A van der Ploeg PJ de Wit JD Jones, Plant Cell 2005 17 3 1000 1015 10.1105/tpc.104.028118 15722474
12. Phylogenomic analysis of the receptor-like proteins of rice and Arabidopsis. LK Fritz-Laylin N Krishnamurthy M Tor KV Sjolander JD Jones, Plant Physiol 2005 138 2 611 623 10.1104/pp.104.054452 15955925
13. A genome-wide functional investigation into the roles of receptor-like proteins in Arabidopsis. G Wang U Ellendorff B Kemp JW Mansfield A Forsyth K Mitchell K Bastas CM Liu A Woods-Tor C Zipfel, et al. Plant Physiol 2008 147 2 503 517 10.1104/pp.108.119487 18434605
14. Analyses of non-leucine-rich repeat (non-LRR) regions intervening between LRRs in proteins. N Matsushima T Mikami T Tanaka H Miyashita K Yamada Y Kuroki, Biochim Biophys Acta 2009 1790 10 1217 1237 19580846
15. Homology-based method for identification of protein repeats using statistical significance estimates. MA Andrade CP Ponting TJ Gibson P Bork, J Mol Biol 2000 298 3 521 537 10.1006/jmbi.2000.3684 10772867
16. Structure and evolution of plant disease resistance genes. P Lehmann, J Appl Genet 2002 43 4 403 414 12441626
17. Tandem and segmental gene duplication and recombination in the evolution of plant disease resistance gene. D Leister, Trends Genet 2004 20 3 116 122 10.1016/j.tig.2004.01.007 15049302
18. Resistance gene complexes: evolution and utilization. SH Hulbert CA Webb SM Smith Q Sun, Annu Rev Phytopathol 2001 39 285 312 10.1146/annurev.phyto.39.1. 285 11701867
19. The genetic architecture of resistance. ND Young, Curr Opin Plant Biol 2000 3 4 285 290 10.1016/S1369-5266(00)00081-9 10873848
20. Structure, function and evolution of plant disease resistance genes. J Ellis P Dodds T Pryor, Curr Opin Plant Biol 2000 3 4 278 284 10.1016/S1369-5266(00)00080-7 10873844
21. The evolution of disease resistance genes. TE Richter PC Ronald, Plant Mol Biol 2000 42 1 195 204 10.1023/A:1006388223475 10688137
22. Resistance gene evolution. PC Ronald, Curr Opin Plant Biol 1998 1 4 294 298 10.1016/1369-5266(88)80049-9 10066604
23. Clusters of resistance genes in plants evolve by divergent selection and a birth-and-death process. RW Michelmore BC Meyers, Genome Res 1998 8 11 1113 1130 9847076
24. Pervasive purifying selection characterizes the evolution of I2 homologs. BC Couch R Spangler C Ramos G May, Mol Plant Microbe Interact 2006 19 3 288 303 10.1094/MPMI-19-0288 16570659
25. Super-motifs of leucine-rich repeats (LRRs) proteins. N Matsushima M Kamiya N Suzuki T Tanaka, Genome informatics 2000 11 343 345
26. Super-motifs and evolution of tandem leucine-rich repeats within the small proteoglycans - biglycan, decorin, lumican, fibromodulin, PRELP, keratocan, osteoadherin, epiphycan, and osteoglycin. N Matsushima T Ohyanagi T Tanaka RH Kretsinger, Proteins 2000 38 2 210 225 10.1002/(SICI)1097- 0134(20000201)38:2<210::AID-PROT9>3.0.CO;2-1 10656267
27. Comparative sequence analysis of leucine-rich repeats (LRRs) within vertebrate toll-like receptors. N Matsushima T Tanaka P Enkhbayar T Mikami M Taga K Yamada Y Kuroki, BMC Genomics 2007 8 124 10.1186/1471-2164-8-124 17517123
28. Analyses of six homologous proteins of Protochlamydia amoebophila UWE25 encoded by large GC-rich genes (lgr): a model of evolution and concatenation of leucine-rich repeats. M Eugster CA Roten G Greub, BMC Evol Biol 2007 7 231 10.1186/1471-2148-7-231 18021397
29. A novel potential surface protein in Trichomonas vaginalis contains a leucine-rich repeat shared by micro-organisms from all three domains of life. RP Hirt N Harriman AV Kajava TM Embley, Mol Biochem Parasitol 2002 125 1-2 195 199 10.1016/S0166-6851(02)00211-6 12467987
30. SCRATCH: a protein structure and structural feature prediction server. J Cheng AZ Randall MJ Sweredoski P Baldi, Nucleic Acids Res 2005 33 Web Server 72 76 10.1093/nar/gki396 15980571
31. PROTEUS2: a web server for comprehensive protein structure prediction and structure-based annotation. S Montgomerie JA Cruz S Shrivastava D Arndt M Berjanskii DS Wishart, Nucleic Acids Res 2008 36 Web Server 202 209 10.1093/nar/gkn255 18483082
32. Structural principles of leucine-rich repeat (LRR) proteins. P Enkhbayar M Kamiya M Osaki T Matsumoto N Matsushima, Proteins 2004 54 3 394 403 10.1002/prot.10605 14747988
33. Structure and evolution of parallel beta-helix proteins. J Jenkins O Mayans R Pickersgill, J Struct Biol 1998 122 1-2 236 246 10.1006/jsbi.1998.3985 9724625
34. The architecture of parallel beta-helices and related folds. J Jenkins R Pickersgill, Prog Biophys Mol Biol 2001 77 2 111 175 10.1016/S0079-6107(01) 00013-X 11747907
35. When protein folding is simplified to protein coiling: the continuum of solenoid protein structures. B Kobe AV Kajava, Trends Biochem Sci 2000 25 10 509 515 10.1016/S0968-0004(00)01667-4 11050437
36. Crystal structure of the 50 kDa metallo protease from Serratia marcescens. U Baumann, J Mol Biol 1994 242 3 244 251 10.1006/jmbi.1994.1576 8089845
37. Crystal structure of the TLR4-MD-2 complex with bound endotoxin antagonist Eritoran. HM Kim BS Park JI Kim SE Kim J Lee SC Oh P Enkhbayar N Matsushima H Lee OJ Yoo, et al. Cell 2007 130 5 906 917 10.1016/j.cell.2007.08. 002 17803912
38. Crystal structure of the TLR1-TLR2 heterodimer induced by binding of a tri-acylated lipopeptide. MS Jin SE Kim JY Heo ME Lee HM Kim SG Paik H Lee JO Lee, Cell 2007 130 6 1071 1082 10.1016/j.cell.2007.09.008 17889651
39. Improved prediction of signal peptides: SignalP 3.0. JD Bendtsen H Nielsen G von Heijne S Brunak, J Mol Biol 2004 340 4 783 795 10.1016/j.jmb.2004.05.028 15223320