BLASTP 2.2.22 [Sep-27-2009] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= gi|254780611|ref|YP_003065024.1| RNA polymerase factor sigma-32 [Candidatus Liberibacter asiaticus str. psy62] (302 letters) Database: las_proteome 1233 sequences; 328,796 total letters Searching...................................................done >gi|254780611|ref|YP_003065024.1| RNA polymerase factor sigma-32 [Candidatus Liberibacter asiaticus str. psy62] Length = 302 Score = 618 bits (1594), Expect = e-179, Method: Compositional matrix adjust. Identities = 302/302 (100%), Positives = 302/302 (100%) Query: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL Sbjct: 1 MNRKNMSIIVNGEIGLSRYIHEIRKIPMLEKQEEYVLAKRYREHGDLSAAHRLVTSHLRL 60 Query: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS Sbjct: 61 VVKIAMGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRS 120 Query: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL Sbjct: 121 WSLVKIGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRL 180 Query: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER Sbjct: 181 AGDESLNALINSSDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSVLNPRER 240 Query: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQKP 300 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQKP Sbjct: 241 RIFEARRLQENPVTLENLSSEFEVSRERVRQIEARAFKKVQESIQKQVELSSSPPLLQKP 300 Query: 301 RY 302 RY Sbjct: 301 RY 302 >gi|254780289|ref|YP_003064702.1| RNA polymerase sigma factor RpoD [Candidatus Liberibacter asiaticus str. psy62] Length = 682 Score = 99.8 bits (247), Expect = 5e-23, Method: Compositional matrix adjust. Identities = 85/289 (29%), Positives = 138/289 (47%), Gaps = 49/289 (16%) Query: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 SI V I +S + H + M+ K E E +AK+ +V ++LRLV+ +A Sbjct: 415 SISVETGISISEFRH---IVSMVRKGECEASIAKK-----------EMVEANLRLVISVA 460 Query: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Y GL +++ EGNIGLM+A +KFD G++ +TY+MWW+K A+ I ++ Sbjct: 461 KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIR 520 Query: 126 IGTTANQK--RLFFNLRRLKGHLQAITDNNLKPEQVV--------AIAKKLNVSESEVIS 175 I K ++ RR+ ++ PE++ + K L +++ E IS Sbjct: 521 IPVHMRDKIHKVVRTARRMSNKIK----REPTPEEIAKKLAMPVEGVRKVLKITK-EPIS 575 Query: 176 MNCRLAGDESLNALINS-SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV 234 + + GDE + L + DKN+ D + + N R TR ++ Sbjct: 576 LETPI-GDEDTSHLGDFIEDKNAVSPLDSAI---------------QANLRETTTRVLAS 619 Query: 235 LNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 >gi|254780766|ref|YP_003065179.1| recombination protein F [Candidatus Liberibacter asiaticus str. psy62] Length = 375 Score = 26.2 bits (56), Expect = 0.80, Method: Compositional matrix adjust. Identities = 9/24 (37%), Positives = 15/24 (62%) Query: 82 GNIGLMQAVKKFDPERGFRLATYS 105 G +++A+ P RGFR A+Y+ Sbjct: 39 GKTNILEAISFLSPGRGFRRASYA 62 >gi|254780799|ref|YP_003065212.1| DNA translocase FtsK [Candidatus Liberibacter asiaticus str. psy62] Length = 806 Score = 24.3 bits (51), Expect = 2.7, Method: Compositional matrix adjust. Identities = 10/34 (29%), Positives = 19/34 (55%) Query: 236 NPRERRIFEARRLQENPVTLENLSSEFEVSRERV 269 +P + F + +Q N TL+++ S+F + E V Sbjct: 320 SPVNQMTFSPKVMQNNACTLKSVLSDFGIQGEIV 353 >gi|254781024|ref|YP_003065437.1| electron transfer flavoprotein-ubiquinone oxidoreductase [Candidatus Liberibacter asiaticus str. psy62] Length = 554 Score = 23.9 bits (50), Expect = 3.2, Method: Compositional matrix adjust. Identities = 14/35 (40%), Positives = 17/35 (48%), Gaps = 4/35 (11%) Query: 126 IGTTANQKRLFFNLRRLKGHLQAITDNNLKPEQVV 160 IG A F NL R+KG AI L E++V Sbjct: 327 IGCAAG----FVNLLRIKGSHNAIISGMLAAEKIV 357 >gi|254781029|ref|YP_003065442.1| chemotaxis sensory transducer [Candidatus Liberibacter asiaticus str. psy62] Length = 1828 Score = 23.5 bits (49), Expect = 4.8, Method: Compositional matrix adjust. Identities = 14/34 (41%), Positives = 18/34 (52%) Query: 252 PVTLENLSSEFEVSRERVRQIEARAFKKVQESIQ 285 + LEN E E S RV A +FK + +SIQ Sbjct: 1022 TINLENNLKEQEKSLSRVVDTSASSFKYLSDSIQ 1055 >gi|254780779|ref|YP_003065192.1| 30S ribosomal protein S2 [Candidatus Liberibacter asiaticus str. psy62] Length = 278 Score = 23.1 bits (48), Expect = 6.0, Method: Compositional matrix adjust. Identities = 13/50 (26%), Positives = 24/50 (48%), Gaps = 1/50 (2%) Query: 140 RRLKGHLQAITDNNLKPEQVVAIAKKLNVSESEVISMNCRLAGDESLNAL 189 RRL+ + A+ D N P+ V + N S I++ C L +++ + Sbjct: 178 RRLRIPIVAVVDTNSNPDLVDYVIPG-NDDSSRSIALFCDLVASAAIDGI 226 >gi|254780514|ref|YP_003064927.1| type II restriction endonuclease [Candidatus Liberibacter asiaticus str. psy62] Length = 110 Score = 22.7 bits (47), Expect = 7.4, Method: Compositional matrix adjust. Identities = 8/30 (26%), Positives = 18/30 (60%) Query: 248 LQENPVTLENLSSEFEVSRERVRQIEARAF 277 +Q N + L+N+S+ +EV + + ++ F Sbjct: 1 MQFNEIILKNISNNYEVPKMLITELSTELF 30 Database: las_proteome Posted date: Jun 5, 2011 6:30 PM Number of letters in database: 328,796 Number of sequences in database: 1233 Lambda K H 0.318 0.132 0.371 Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 178,652 Number of Sequences: 1233 Number of extensions: 6787 Number of successful extensions: 33 Number of sequences better than 100.0: 12 Number of HSP's better than 100.0 without gapping: 9 Number of HSP's successfully gapped in prelim test: 3 Number of HSP's that attempted gapping in prelim test: 22 Number of HSP's gapped (non-prelim): 13 length of query: 302 length of database: 328,796 effective HSP length: 73 effective length of query: 229 effective length of database: 238,787 effective search space: 54682223 effective search space used: 54682223 T: 11 A: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 38 (19.2 bits)