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|254780991|ref|YP_003065404.1| excinuclease ABC subunit B [Candidatus Liberibacter asiaticus str. psy62] (805 letters) Database: las_proteome 1233 sequences; 328,796 total letters Searching...................................................done >gi|254780991|ref|YP_003065404.1| excinuclease ABC subunit B [Candidatus Liberibacter asiaticus str. psy62] Length = 805 Score = 1670 bits (4324), Expect = 0.0, Method: Compositional matrix adjust. Identities = 805/805 (100%), Positives = 805/805 (100%) Query: 1 MPKKTRSFPKKDSRIQSISTRVDDLDYFSFEEKQLEVDKTMVADAMRRIRSEAGKHRKNA 60 MPKKTRSFPKKDSRIQSISTRVDDLDYFSFEEKQLEVDKTMVADAMRRIRSEAGKHRKNA Sbjct: 1 MPKKTRSFPKKDSRIQSISTRVDDLDYFSFEEKQLEVDKTMVADAMRRIRSEAGKHRKNA 60 Query: 61 AKRMLIHQRENTASKGEFQSQSSISMSEKQTREISEQTMTPSVQALARLIQSDNPLLKNG 120 AKRMLIHQRENTASKGEFQSQSSISMSEKQTREISEQTMTPSVQALARLIQSDNPLLKNG Sbjct: 61 AKRMLIHQRENTASKGEFQSQSSISMSEKQTREISEQTMTPSVQALARLIQSDNPLLKNG 120 Query: 121 KIWTPHRSWSINNHSKDITFFQMQTDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSG 180 KIWTPHRSWSINNHSKDITFFQMQTDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSG Sbjct: 121 KIWTPHRSWSINNHSKDITFFQMQTDYHPSGDQPAAIAQLLKGIHSREKVQLLLGVTGSG 180 Query: 181 KTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQPEAYVPR 240 KTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQPEAYVPR Sbjct: 181 KTFTMAKVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVSYYDYYQPEAYVPR 240 Query: 241 TDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVESYSQMIVQLKIG 300 TDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVESYSQMIVQLKIG Sbjct: 241 TDTYIEKESSINEQIDRMRHSATRSLLERNDCIVVSSVSCIYGIGSVESYSQMIVQLKIG 300 Query: 301 DSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIEEI 360 DSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIEEI Sbjct: 301 DSVEQKELLSSLVKQQYKRQDIGIIRGTFRVCGDSIEIFPSHLEDVAWRVSMFGNDIEEI 360 Query: 361 SEFYPLTGQKIRNVETIKIYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQ 420 SEFYPLTGQKIRNVETIKIYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQ Sbjct: 361 SEFYPLTGQKIRNVETIKIYANSHYVTPRPTLNTAMKYIKEELKMRLIELEKEGRLLEAQ 420 Query: 421 RLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPGEPPPTLFEYIPEDSLLFVDESHVTI 480 RLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPGEPPPTLFEYIPEDSLLFVDESHVTI Sbjct: 421 RLEQRITYDLEMLETTGSCQSIENYSRYLTGRNPGEPPPTLFEYIPEDSLLFVDESHVTI 480 Query: 481 PQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATPGSWELEQC 540 PQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATPGSWELEQC Sbjct: 481 PQISGMYRGDFHRKATLAEYGFRLPSCMDNRPLRFEEWNCLRPTTIVVSATPGSWELEQC 540 Query: 541 QGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTE 600 QGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTE Sbjct: 541 QGIIVEQIIRPTGLVDPPVEIRSARTQVEDVYDEINLAAQQGLRILLTVLTKRMAEDLTE 600 Query: 601 YLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDAD 660 YLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDAD Sbjct: 601 YLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPECGLVAILDAD 660 Query: 661 KEGFLRSKTSLIQTIGRAARNVNSKVILYADTITKSIQLAIDETTRRREKQLEHNKKHNI 720 KEGFLRSKTSLIQTIGRAARNVNSKVILYADTITKSIQLAIDETTRRREKQLEHNKKHNI Sbjct: 661 KEGFLRSKTSLIQTIGRAARNVNSKVILYADTITKSIQLAIDETTRRREKQLEHNKKHNI 720 Query: 721 NPQSVKEKIMEVIDPILLEDAATTNISIDAQQLSLSKKKGKAHLKSLRKQMHLAADNLNF 780 NPQSVKEKIMEVIDPILLEDAATTNISIDAQQLSLSKKKGKAHLKSLRKQMHLAADNLNF Sbjct: 721 NPQSVKEKIMEVIDPILLEDAATTNISIDAQQLSLSKKKGKAHLKSLRKQMHLAADNLNF 780 Query: 781 EEAARIRDEIKRLKSSPYFQGLDDS 805 EEAARIRDEIKRLKSSPYFQGLDDS Sbjct: 781 EEAARIRDEIKRLKSSPYFQGLDDS 805 >gi|254780945|ref|YP_003065358.1| ATP-dependent DNA helicase RecG [Candidatus Liberibacter asiaticus str. psy62] Length = 700 Score = 39.7 bits (91), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 26/75 (34%), Positives = 42/75 (56%), Gaps = 6/75 (8%) Query: 147 YHPSGDQPAAIAQLLKGIHSREK-VQLLLGVTGSGKTFT----MAKVIEAMQRPAIVMAP 201 + P+ Q +AI +L+ + + + +++L G GSGKT MA +EA + A++MAP Sbjct: 271 FSPTKSQESAIKDILQDMSQKNRMLRILQGDVGSGKTLVALIAMAAAVEAGGQ-AVIMAP 329 Query: 202 NKILAAQLYSEFKNF 216 ILA Q Y K + Sbjct: 330 IGILAQQHYEFIKKY 344 >gi|254780382|ref|YP_003064795.1| ATP dependent RNA helicase protein [Candidatus Liberibacter asiaticus str. psy62] Length = 465 Score = 38.1 bits (87), Expect = 5e-04, Method: Compositional matrix adjust. Identities = 30/117 (25%), Positives = 51/117 (43%), Gaps = 8/117 (6%) Query: 592 KRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPEC 651 K+ +L L ++ V +H + R++I+ + + G ++V +L GLDIP+ Sbjct: 255 KKNVVNLCHSLEKQGFSVCAIHGNIDQRSRMKILSNFKEGTIQLMVASDLAARGLDIPDV 314 Query: 652 GLVAILDADKEGFLRSKTSLIQTIGRAARN------VNSKVILYADTITKSIQLAID 702 G V D + I GRA R+ V + I + D I K I+ +D Sbjct: 315 GHVFNFDVPNRA--ENYIHRIGRTGRAGRHGKAFTLVAKEDIKHIDAIEKLIEKKVD 369 >gi|254780619|ref|YP_003065032.1| primosome assembly protein PriA [Candidatus Liberibacter asiaticus str. psy62] Length = 731 Score = 35.8 bits (81), Expect = 0.003, Method: Compositional matrix adjust. Identities = 40/171 (23%), Positives = 70/171 (40%), Gaps = 27/171 (15%) Query: 82 SSISMSEKQTREISEQTMTPSVQALARLIQSDNPLLKNGKIWTPH---RSWSINNHSKDI 138 S++S +EK +I + P + +ARL D +K+GKIW R+ +++H D Sbjct: 112 SALSETEKMEEKIQFTGIFPRINTVARLRVLDK--IKDGKIWEKRDLIRASQVSSHVIDG 169 Query: 139 -----TFFQMQTDYHPSGDQPA--------------AIAQLLKGIHSREKVQLLLGVTGS 179 Q+ P D P + Q++ V L+ GVTGS Sbjct: 170 LKAQGVIKQIFEVISPVVDSPNLYFSLPILDKNQQDVVEQVVPLCTKGFAVSLISGVTGS 229 Query: 180 GKTFTMAKVIEA---MQRPAIVMAPNKILAAQLYSEFKNFFPHNAVEYFVS 227 GKT +++ A + + +++ P L + + F+ F E+ S Sbjct: 230 GKTEVYLEIVAAVLHLGKQVLILLPEISLTSAILERFQKRFGVKPAEWHSS 280 Score = 32.7 bits (73), Expect = 0.024, Method: Compositional matrix adjust. Identities = 29/113 (25%), Positives = 53/113 (46%), Gaps = 11/113 (9%) Query: 577 LAAQQGLRILLTVLTKRMAEDLTEYLYERNIRVRYMHSEVKTLE-RIEI-IRDLRLGKFD 634 + G I +R+AE++ EY R+ + S+++ R+++ + + G+ D Sbjct: 481 VCGSSGKMIACGFGIERIAEEVCEYF--PLARISILSSDLEGGGGRLQLQLSAIAKGEID 538 Query: 635 VLVGINLLREGLDIPECGLVAILDAD---KEGFLRSKTS----LIQTIGRAAR 680 +++G L+ +G + P LV ++D D LRS L Q GRA R Sbjct: 539 IIIGTQLVAKGHNFPRMSLVGVVDGDLGLTNADLRSSERTFQLLSQVTGRAGR 591 Score = 24.6 bits (52), Expect = 6.6, Method: Compositional matrix adjust. Identities = 34/126 (26%), Positives = 58/126 (46%), Gaps = 10/126 (7%) Query: 537 LEQCQGIIVEQIIRPTGLVDPPVEIRSARTQV--EDVYDEINLAAQQ-GLRILLTVLTKR 593 L++ Q +VEQ++ P V + S T +VY EI A G ++L+ + Sbjct: 199 LDKNQQDVVEQVV-PLCTKGFAVSLISGVTGSGKTEVYLEIVAAVLHLGKQVLILLPEIS 257 Query: 594 MAEDLTEYLYER-NIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIP--E 650 + + E +R ++ HS + T R +I R + G V+VG+ R L +P + Sbjct: 258 LTSAILERFQKRFGVKPAEWHSSLSTSMREKIWRQVARGAISVIVGV---RSALFLPFKK 314 Query: 651 CGLVAI 656 GL+ I Sbjct: 315 LGLIVI 320 >gi|254780947|ref|YP_003065360.1| transcription-repair coupling factor [Candidatus Liberibacter asiaticus str. psy62] Length = 1187 Score = 32.0 bits (71), Expect = 0.040, Method: Compositional matrix adjust. Identities = 17/59 (28%), Positives = 30/59 (50%), Gaps = 4/59 (6%) Query: 631 GKFDVLVGINLLREGLDIPECGLVAILDADKEGFLRSKTSLIQTIGRAARNVNSKVILY 689 G++DVL+ +++ GLD+P+ + + AD G L Q GR R+ + L+ Sbjct: 885 GQYDVLLSTSIVESGLDLPKANTMIVQRADMFGL----AQLYQLRGRVGRSKIASFALF 939 Score = 25.4 bits (54), Expect = 3.4, Method: Compositional matrix adjust. Identities = 12/37 (32%), Positives = 20/37 (54%) Query: 187 KVIEAMQRPAIVMAPNKILAAQLYSEFKNFFPHNAVE 223 K+++ + AI P +++ LYS+F FPH E Sbjct: 592 KLVDIAAKRAIHSVPPLMVSQDLYSQFIKRFPHVETE 628 >gi|254780601|ref|YP_003065014.1| ATP-dependent RNA helicase protein [Candidatus Liberibacter asiaticus str. psy62] Length = 573 Score = 28.9 bits (63), Expect = 0.33, Method: Compositional matrix adjust. Identities = 26/93 (27%), Positives = 44/93 (47%), Gaps = 8/93 (8%) Query: 591 TKRMAEDLTEYLYERNIRVRYMHSEVKTLERIEIIRDLRLGKFDVLVGINLLREGLDIPE 650 T+ T+ L E +V + E+ ER ++ +R G+ V + ++ G+D+P+ Sbjct: 253 TRASVSRFTKVLAEHLFQVVALSGELSQQERSNALQMMRDGRARVCIATDVAARGIDLPD 312 Query: 651 CGLV--AILDADKEGFL-RSKTSLIQTIGRAAR 680 LV A L ++ E L RS + GRA R Sbjct: 313 LELVIHAELSSNPENLLHRSGRT-----GRAGR 340 >gi|254780711|ref|YP_003065124.1| signal recognition particle protein [Candidatus Liberibacter asiaticus str. psy62] Length = 461 Score = 25.8 bits (55), Expect = 2.9, Method: Compositional matrix adjust. Identities = 11/19 (57%), Positives = 15/19 (78%) Query: 170 VQLLLGVTGSGKTFTMAKV 188 V +L+G+ GSGKT T AK+ Sbjct: 102 VIMLVGLQGSGKTTTTAKI 120 >gi|254780163|ref|YP_003064576.1| ATP-dependent Clp protease ATP-binding subunit [Candidatus Liberibacter asiaticus str. psy62] Length = 798 Score = 25.4 bits (54), Expect = 3.8, Method: Compositional matrix adjust. Identities = 16/71 (22%), Positives = 32/71 (45%), Gaps = 4/71 (5%) Query: 151 GDQPAAIAQLLKGIHSREKVQLLLG----VTGSGKTFTMAKVIEAMQRPAIVMAPNKILA 206 GD I +++K I S L + + G+G ++ + +PA+ + + Sbjct: 279 GDFEERIKKIVKEIESYANAILYIDEIHTLVGAGSASGISVDASNLLKPALSSGAVRCIG 338 Query: 207 AQLYSEFKNFF 217 + YSE++ FF Sbjct: 339 STTYSEYRQFF 349 >gi|254780979|ref|YP_003065392.1| aspartyl/glutamyl-tRNA amidotransferase subunit B [Candidatus Liberibacter asiaticus str. psy62] Length = 500 Score = 24.6 bits (52), Expect = 7.2, Method: Compositional matrix adjust. Identities = 14/43 (32%), Positives = 23/43 (53%), Gaps = 3/43 (6%) Query: 3 KKTRSFPKKDSRIQSISTRVDDLDYFSFEEKQ---LEVDKTMV 42 ++TR F + +S+ T+ D LDY F E LE+D+ + Sbjct: 269 QETRLFDPSKNETRSLRTKEDALDYRYFSEPDLLPLEIDEDFI 311 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 0.317 0.133 0.374 Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 485,461 Number of Sequences: 1233 Number of extensions: 19946 Number of successful extensions: 70 Number of sequences better than 100.0: 11 Number of HSP's better than 100.0 without gapping: 9 Number of HSP's successfully gapped in prelim test: 2 Number of HSP's that attempted gapping in prelim test: 53 Number of HSP's gapped (non-prelim): 19 length of query: 805 length of database: 328,796 effective HSP length: 81 effective length of query: 724 effective length of database: 228,923 effective search space: 165740252 effective search space used: 165740252 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: 42 (20.8 bits)