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|254780289|ref|YP_003064702.1| RNA polymerase sigma factor RpoD [Candidatus Liberibacter asiaticus str. psy62] (682 letters) Database: las_proteome 1233 sequences; 328,796 total letters Searching...................................................done >gi|254780289|ref|YP_003064702.1| RNA polymerase sigma factor RpoD [Candidatus Liberibacter asiaticus str. psy62] Length = 682 Score = 1397 bits (3616), Expect = 0.0, Method: Compositional matrix adjust. Identities = 682/682 (100%), Positives = 682/682 (100%) Query: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS Sbjct: 1 MTIGKKRNRDSDSEHEDSDDSLVFDFSDDSWKKMIKLARQRGYVTIEELNAFLPPDEVSS 60 Query: 61 EQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDP 120 EQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDP Sbjct: 61 EQMEDTVAMLSNMGINVVDGDDLEDEEGSEDSLDLASSASNSSVFLQKRKDSADRSTDDP 120 Query: 121 VRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTL 180 VRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTL Sbjct: 121 VRMYLREMGSIELLSREGEIAIAKRIEAGRAMMMASLCESPLTFQALIIWRDELNDGTTL 180 Query: 181 LREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDD 240 LREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDD Sbjct: 181 LREIIDLEACIGPESKGGFFHGTEGHSYQKREDSSQEKERDDVQETEGDIESAAKVSKDD 240 Query: 241 RSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN 300 RSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN Sbjct: 241 RSKVDSPPENAENDERNLDEDEDDSAHTLSAMEDQLRPKVMCALDEIAEVYRELRSLQDN 300 Query: 301 AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA 360 AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA Sbjct: 301 AVNGQKDEKSSVKCKVLKEKLVKLVGSLSLNQSRIDLLVEQLYDISKRIMHNEGELLRLA 360 Query: 361 QSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVET 420 QSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVET Sbjct: 361 QSYGIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVACEVDSILKIRNEIKSISVET 420 Query: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG Sbjct: 421 GISISEFRHIVSMVRKGECEASIAKKEMVEANLRLVISVAKKYTNRGLQFLDLIQEGNIG 480 Query: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS Sbjct: 481 LMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIRIPVHMRDKIHKVVRTARRMS 540 Query: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP Sbjct: 541 NKIKREPTPEEIAKKLAMPVEGVRKVLKITKEPISLETPIGDEDTSHLGDFIEDKNAVSP 600 Query: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE Sbjct: 601 LDSAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIE 660 Query: 661 AKAIRKLKHPSRSKKLRSFLDG 682 AKAIRKLKHPSRSKKLRSFLDG Sbjct: 661 AKAIRKLKHPSRSKKLRSFLDG 682 >gi|254780611|ref|YP_003065024.1| RNA polymerase factor sigma-32 [Candidatus Liberibacter asiaticus str. psy62] Length = 302 Score = 99.8 bits (247), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 85/289 (29%), Positives = 138/289 (47%), Gaps = 49/289 (16%) Query: 415 SISVETGISISEFRH---IVSMVRKGECEASIAKK-----------EMVEANLRLVISVA 460 SI V I +S + H + M+ K E E +AK+ +V ++LRLV+ +A Sbjct: 7 SIIVNGEIGLSRYIHEIRKIPMLEKQE-EYVLAKRYREHGDLSAAHRLVTSHLRLVVKIA 65 Query: 461 KKYTNRGLQFLDLIQEGNIGLMKAAEKFDWCLGYKFSTYAMWWVKQAITRSIADQSCTIR 520 Y GL +++ EGNIGLM+A +KFD G++ +TY+MWW+K A+ I ++ Sbjct: 66 MGYRGYGLPISEVVSEGNIGLMQAVKKFDPERGFRLATYSMWWIKAAMQEYILRSWSLVK 125 Query: 521 IPVHMRDKIHKVVRTARRMSNKIK----REPTPEEIAKKLAMPVEGVRKVLKITK-EPIS 575 I K ++ RR+ ++ PE++ + K L +++ E IS Sbjct: 126 IGTTANQK--RLFFNLRRLKGHLQAITDNNLKPEQVV--------AIAKKLNVSESEVIS 175 Query: 576 LETPI-GDEDTSHLGDFIEDKNAVSPLDSAI---------------QANLRETTTRVLAS 619 + + GDE + L + DKN+ D + + N R TR ++ Sbjct: 176 MNCRLAGDESLNALINS-SDKNSSQWQDWLVYDHDGQEQVLIEKEERKNRRNMLTRSMSV 234 Query: 620 LTPREERVLRMRFGIGMNTDHTLEEVGKQFCVTRERIRQIEAKAIRKLK 668 L PRE R+ R TLE + +F V+RER+RQIEA+A +K++ Sbjct: 235 LNPRERRIFEARR--LQENPVTLENLSSEFEVSRERVRQIEARAFKKVQ 281 >gi|254780285|ref|YP_003064698.1| arginyl-tRNA synthetase [Candidatus Liberibacter asiaticus str. psy62] Length = 586 Score = 33.5 bits (75), Expect = 0.011, Method: Compositional matrix adjust. Identities = 22/65 (33%), Positives = 39/65 (60%), Gaps = 3/65 (4%) Query: 364 GIKRDVFLERHQGRELDPHWVSYAKDFPEGEWKNFVA-CEVDSILK-IRNEIKSISVETG 421 G V+L +H G+EL + S +FPE +W V V +++K IR+++K+++++ Sbjct: 199 GYYPGVYL-KHVGKELADKYSSELLNFPEEKWLPIVKDYSVQAMMKIIRDDLKALNIQHD 257 Query: 422 ISISE 426 I ISE Sbjct: 258 IFISE 262 >gi|254780648|ref|YP_003065061.1| GTPase ObgE [Candidatus Liberibacter asiaticus str. psy62] Length = 335 Score = 28.5 bits (62), Expect = 0.40, Method: Compositional matrix adjust. Identities = 11/29 (37%), Positives = 18/29 (62%) Query: 267 HTLSAMEDQLRPKVMCALDEIAEVYRELR 295 H +SA+E+ ++ C LDE++ ELR Sbjct: 242 HIVSALEENVQAAYQCILDELSAYNSELR 270 >gi|254780425|ref|YP_003064838.1| apolipoprotein N-acyltransferase [Candidatus Liberibacter asiaticus str. psy62] Length = 518 Score = 25.0 bits (53), Expect = 3.7, Method: Compositional matrix adjust. Identities = 11/44 (25%), Positives = 18/44 (40%), Gaps = 6/44 (13%) Query: 478 NIGLMKAAEKFD------WCLGYKFSTYAMWWVKQAITRSIADQ 515 N+G M A + W G + +WWV++ I I + Sbjct: 57 NLGRMSAISRVGSSFFVGWLFGVGYFLAGLWWVREGIVDQIGSR 100 >gi|254780306|ref|YP_003064719.1| DNA topoisomerase I [Candidatus Liberibacter asiaticus str. psy62] Length = 837 Score = 25.0 bits (53), Expect = 4.5, Method: Compositional matrix adjust. Identities = 10/18 (55%), Positives = 13/18 (72%) Query: 574 ISLETPIGDEDTSHLGDF 591 + LETP D+ T+HL DF Sbjct: 197 VLLETPRNDKFTAHLTDF 214 >gi|254780538|ref|YP_003064951.1| ABC transporter, nucleotide binding/ATPase protein (iron) [Candidatus Liberibacter asiaticus str. psy62] Length = 280 Score = 24.6 bits (52), Expect = 5.6, Method: Compositional matrix adjust. Identities = 7/26 (26%), Positives = 16/26 (61%) Query: 35 IKLARQRGYVTIEELNAFLPPDEVSS 60 I + GY +E++N F+P + +++ Sbjct: 17 ISVTYPNGYCALEDVNLFIPENTITA 42 >gi|254780695|ref|YP_003065108.1| flagellar MS-ring protein [Candidatus Liberibacter asiaticus str. psy62] Length = 563 Score = 24.3 bits (51), Expect = 7.4, Method: Compositional matrix adjust. Identities = 13/47 (27%), Positives = 26/47 (55%) Query: 217 EKERDDVQETEGDIESAAKVSKDDRSKVDSPPENAENDERNLDEDED 263 ++ R+ V + + +E + ++SKD + S PE+A E+N+ D Sbjct: 271 QQIREIVYDPDSKVERSIRLSKDAQRSETSQPESAVTVEQNMPHVSD 317 >gi|254780476|ref|YP_003064889.1| two component response regulator [Candidatus Liberibacter asiaticus str. psy62] Length = 123 Score = 23.9 bits (50), Expect = 9.9, Method: Compositional matrix adjust. Identities = 12/32 (37%), Positives = 17/32 (53%), Gaps = 4/32 (12%) Query: 434 VRKGECEASIAKKEMVEANLRLVISVAKKYTN 465 +RKG CEA I+K +L + + KKY Sbjct: 94 IRKGGCEAYISKP----ISLSIFMETIKKYIG 121 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 0.315 0.131 0.366 Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 407,336 Number of Sequences: 1233 Number of extensions: 16836 Number of successful extensions: 53 Number of sequences better than 100.0: 19 Number of HSP's better than 100.0 without gapping: 15 Number of HSP's successfully gapped in prelim test: 4 Number of HSP's that attempted gapping in prelim test: 36 Number of HSP's gapped (non-prelim): 20 length of query: 682 length of database: 328,796 effective HSP length: 80 effective length of query: 602 effective length of database: 230,156 effective search space: 138553912 effective search space used: 138553912 T: 11 A: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (22.0 bits) S2: 42 (20.8 bits)