RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddA 21,609 sequences; 6,263,737 total letters Searching..................................................done Query= gi|254780249|ref|YP_003064662.1| 50S ribosomal protein L5 [Candidatus Liberibacter asiaticus str. psy62] (185 letters) >gnl|CDD|30443 COG0094, RplE, Ribosomal protein L5 [Translation, ribosomal structure and biogenesis]. Length = 180 Score = 265 bits (680), Expect = 4e-72 Identities = 111/178 (62%), Positives = 141/178 (79%) Query: 8 PRLKKEYCLRIREAMQQEFSYKNVMQIPKIEKVVVNMGVGESIADSKKAESAAADLALIT 67 RLK++Y I A+ ++F Y N MQ+P+IEKVVVNMGVGE+ AD K+ E AA DL LIT Sbjct: 2 NRLKEKYKDEIVPALIKKFGYSNPMQVPRIEKVVVNMGVGEAAADGKRLEKAAKDLELIT 61 Query: 68 GQKPVITRARRSIAGFKLRTGMPIGTKVTLRGTNMYDFLDRLINMGMPRIRDFHGLNSRS 127 GQKPVIT+A++SIAGFK+R GMPIG KVTLRG MY+FLDRL+N+ +PR+RDF GL+ +S Sbjct: 62 GQKPVITKAKKSIAGFKIREGMPIGVKVTLRGERMYEFLDRLLNIALPRVRDFRGLSPKS 121 Query: 128 FDGSGNFSFGIREHIVFPEINYDKVDCVLGMDISICTTTRSDREAKYLLTLFGFPFPK 185 FDG GN+SFGI+E I+FPEI+YD + + GMDI+I TT + D EA+ LL+ FG PF K Sbjct: 122 FDGRGNYSFGIKEQIIFPEIDYDPIIGIRGMDITIVTTAKGDVEARALLSAFGIPFRK 179 >gnl|CDD|177017 CHL00078, rpl5, ribosomal protein L5. Length = 181 Score = 262 bits (671), Expect = 6e-71 Identities = 95/176 (53%), Positives = 133/176 (75%) Query: 8 PRLKKEYCLRIREAMQQEFSYKNVMQIPKIEKVVVNMGVGESIADSKKAESAAADLALIT 67 RLK Y +I + ++F YKN+ Q+PK++K+V+N G+GE+ +SK ES+ +L +IT Sbjct: 3 QRLKSLYKEKIVPKLIEKFLYKNIHQVPKLKKIVINRGLGEASQNSKILESSIKELTIIT 62 Query: 68 GQKPVITRARRSIAGFKLRTGMPIGTKVTLRGTNMYDFLDRLINMGMPRIRDFHGLNSRS 127 GQKP+ITRA+++IAGFK+R MP+G VTLRG MY FLDRLIN+ +PRIRDF GL+ +S Sbjct: 63 GQKPIITRAKKAIAGFKIREKMPVGVSVTLRGDKMYAFLDRLINLALPRIRDFQGLSPKS 122 Query: 128 FDGSGNFSFGIREHIVFPEINYDKVDCVLGMDISICTTTRSDREAKYLLTLFGFPF 183 FDG GN++ G++E ++FPEI+YDK+D + GMDISI TT ++D+E LL G PF Sbjct: 123 FDGHGNYNLGLKEQLMFPEIDYDKIDQIRGMDISIVTTAKTDQEGLALLKELGMPF 178 >gnl|CDD|35619 KOG0398, KOG0398, KOG0398, Mitochondrial/chloroplast ribosomal protein L5/L7 [Translation, ribosomal structure and biogenesis]. Length = 278 Score = 190 bits (484), Expect = 2e-49 Identities = 92/179 (51%), Positives = 122/179 (68%), Gaps = 4/179 (2%) Query: 9 RLKKEYCLRIREAMQQEFSYKNVMQIPKIEKVVVNMGVGESIADSKKAESAAADLALITG 68 R + Y R +A+ EF Y N+ +PK++KVVVN G+GE+ + K E+A D+ALITG Sbjct: 95 RNRPPYLERGIKALLPEFKYVNIHNVPKVQKVVVNCGIGEAAQNDKGLEAAMKDIALITG 154 Query: 69 QKPVITRARRSIAGFKLRTGMPIGTKVTLRGTNMYDFLDRLINMGMPRIRDFHGLNSRSF 128 QKP+ TRAR +A +KLR G P+G KVTLRG MY FL RLI + +PR RDF G++ S Sbjct: 155 QKPIKTRARADVATWKLREGQPLGIKVTLRGDVMYSFLSRLIELVLPRTRDFKGVSPSSG 214 Query: 129 DGSGNFSFGIREHI--VFPEI--NYDKVDCVLGMDISICTTTRSDREAKYLLTLFGFPF 183 DG+GN SFG++ VFPEI N+D V GMD++I TT +SD+EA+ LL+L G PF Sbjct: 215 DGNGNISFGLKAEDQGVFPEIRANFDAVPKTRGMDVNISTTAKSDQEARKLLSLMGMPF 273 >gnl|CDD|144317 pfam00673, Ribosomal_L5_C, ribosomal L5P family C-terminus. This region is found associated with pfam00281. Length = 95 Score = 163 bits (414), Expect = 4e-41 Identities = 60/94 (63%), Positives = 75/94 (79%) Query: 90 PIGTKVTLRGTNMYDFLDRLINMGMPRIRDFHGLNSRSFDGSGNFSFGIREHIVFPEINY 149 PIG KVTLRG MY+FLDRLIN+ +PRIRDF GL+ +SFDG GN+SFGI+EHI+FPEI Y Sbjct: 1 PIGCKVTLRGEKMYEFLDRLINIVLPRIRDFRGLSPKSFDGRGNYSFGIKEHIIFPEIKY 60 Query: 150 DKVDCVLGMDISICTTTRSDREAKYLLTLFGFPF 183 D + + GMDI+I TT ++D+EA+ LL G PF Sbjct: 61 DPIIGIFGMDITIVTTAKTDKEARALLKELGMPF 94 >gnl|CDD|109342 pfam00281, Ribosomal_L5, Ribosomal protein L5. Length = 56 Score = 83.1 bits (206), Expect = 4e-17 Identities = 35/57 (61%), Positives = 48/57 (84%), Gaps = 1/57 (1%) Query: 30 NVMQIPKIEKVVVNMGVGESIADSKKAESAAADLALITGQKPVITRARRSIAGFKLR 86 NVM++PK+EK+VVNMGVGE+ D+K E AA +L I+GQKP+IT+A++SIA FK+R Sbjct: 1 NVMEVPKLEKIVVNMGVGEA-GDNKILEKAALELEEISGQKPIITKAKKSIASFKIR 56 >gnl|CDD|35618 KOG0397, KOG0397, KOG0397, 60S ribosomal protein L11 [Translation, ribosomal structure and biogenesis]. Length = 176 Score = 77.7 bits (191), Expect = 2e-15 Identities = 50/145 (34%), Positives = 78/145 (53%), Gaps = 10/145 (6%) Query: 29 KNVMQIPKIEKVVVNMGVGESIADSKKAESAAADLALITGQKPVITRARRSIAGFKLRTG 88 +N M+ KI+K+V+N+ VGES + AA L +TGQ PV ++AR ++ F +R Sbjct: 7 QNPMRELKIQKLVLNICVGES---GDRLTRAAKVLEQLTGQTPVFSKARYTVRSFGIRRN 63 Query: 89 MPIGTKVTLRGTNMYDFLDRLINMGMPRIRDFHGLNSRSFDGSGNFSFGIREHIVFPEIN 148 I VT+RG + L+R + +++++ L R+F +GNF FGI+EHI I Sbjct: 64 EKIAVHVTVRGPKAEEILERGL-----KVKEYE-LRKRNFSDTGNFGFGIQEHIDL-GIK 116 Query: 149 YDKVDCVLGMDISICTTTRSDREAK 173 YD + GMD + R A+ Sbjct: 117 YDPSIGIYGMDFYVVLGRPGYRVAR 141 >gnl|CDD|143824 pfam00035, dsrm, Double-stranded RNA binding motif. Putative motif shared by proteins that bind to dsRNA. At least some DSRM proteins seem to bind to specific RNA targets. Exemplified by Staufen, which is involved in localisation of at least five different mRNAs in the early Drosophila embryo. Also by interferon-induced protein kinase in humans, which is part of the cellular response to dsRNA. Length = 66 Score = 31.1 bits (71), Expect = 0.20 Identities = 15/57 (26%), Positives = 22/57 (38%), Gaps = 4/57 (7%) Query: 13 EYCLRIREAMQQEFSYKNVMQIPKIEKVVVNMG---VGESIADSKK-AESAAADLAL 65 E C + + E+ + V V +G G SKK A+ AA+ AL Sbjct: 7 ELCQKKGKKPPYEYVEEEGPSHSPTFTVTVTVGGKKYGTGTGSSKKEAKQLAAEKAL 63 >gnl|CDD|29328 cd01343, PL1_Passenger_AT, Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases, SPATEs (serine protease autotransporters secreted by Enterobacteriaceae), Bordetella pertacins, and nonprotease autotransporters, TibA and similar AIDA-like proteins.. Length = 233 Score = 29.9 bits (67), Expect = 0.42 Identities = 17/94 (18%), Positives = 32/94 (34%), Gaps = 8/94 (8%) Query: 47 GESIADSKKAESAAADLALITGQKPVITRARRSIAGFKLRTGMPIGTKVTLRGTNMYDFL 106 G + + + A A+L L +I G + + + TL G + + L Sbjct: 61 GTVVLGAGQPLQALAELLLGGN-----AAWTGAIQGLNATVSLNLNSVWTLTGDSNVNNL 115 Query: 107 ---DRLINMGMPRIRDFHGLNSRSFDGSGNFSFG 137 ++ P F+ L + G+G F Sbjct: 116 TLNGGTVDFNGPSAGKFNTLTVNTLSGNGTFVMR 149 >gnl|CDD|30612 COG0263, ProB, Glutamate 5-kinase [Amino acid transport and metabolism]. Length = 369 Score = 27.1 bits (60), Expect = 2.6 Identities = 8/36 (22%), Positives = 12/36 (33%) Query: 59 AAADLALITGQKPVITRARRSIAGFKLRTGMPIGTK 94 AA +A G +I + G +GT Sbjct: 221 EAAKIATRAGVPVIIASGSKPDVILDALEGEAVGTL 256 >gnl|CDD|144336 pfam00696, AA_kinase, Amino acid kinase family. This family includes kinases that phosphorylate a variety of amino acid substrates, as well as uridylate kinase and carbamate kinase. This family includes: Aspartokinase EC:2.7.2.4. Acetylglutamate kinase EC:2.7.2.8. Glutamate 5-kinase EC:2.7.2.11. Uridylate kinase EC:2.7.4.-. Carbamate kinase EC:2.7.2.2. Length = 230 Score = 25.4 bits (56), Expect = 8.7 Identities = 18/69 (26%), Positives = 31/69 (44%), Gaps = 4/69 (5%) Query: 38 EKVVVNMGVGESIADSKKAESAAADLALIT--GQKPVITRARRSIAGFKLRTGMPIGTKV 95 +++V+ +G G S+ D + A ++AL++ G K V+ KL I K+ Sbjct: 1 KRIVIKLG-GSSLTDEDAIKRIAEEIALLSELGIKVVVVSGGGGFTD-KLLAAYGIAEKI 58 Query: 96 TLRGTNMYD 104 LR T Sbjct: 59 GLRVTAGAT 67 >gnl|CDD|36517 KOG1303, KOG1303, KOG1303, Amino acid transporters [Amino acid transport and metabolism]. Length = 437 Score = 25.3 bits (55), Expect = 9.6 Identities = 8/20 (40%), Positives = 9/20 (45%) Query: 128 FDGSGNFSFGIREHIVFPEI 147 F G +F H V PEI Sbjct: 231 FTALGIIAFAYGGHAVLPEI 250 Database: CddA Posted date: Feb 4, 2011 9:38 PM Number of letters in database: 6,263,737 Number of sequences in database: 21,609 Lambda K H 0.324 0.140 0.410 Gapped Lambda K H 0.267 0.0682 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21609 Number of Hits to DB: 2,249,512 Number of extensions: 114682 Number of successful extensions: 250 Number of sequences better than 10.0: 1 Number of HSP's gapped: 246 Number of HSP's successfully gapped: 12 Length of query: 185 Length of database: 6,263,737 Length adjustment: 88 Effective length of query: 97 Effective length of database: 4,362,145 Effective search space: 423128065 Effective search space used: 423128065 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 54 (24.7 bits)