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|254780552|ref|YP_003064965.1| Holliday junction DNA helicase RuvB [Candidatus Liberibacter asiaticus str. psy62] (334 letters) Database: las_proteome 1233 sequences; 328,796 total letters Searching...................................................done >gi|254780552|ref|YP_003064965.1| Holliday junction DNA helicase RuvB [Candidatus Liberibacter asiaticus str. psy62] Length = 334 Score = 670 bits (1728), Expect = 0.0, Method: Compositional matrix adjust. Identities = 334/334 (100%), Positives = 334/334 (100%) Query: 1 MMDREGLLSRNVSQEDADISLLRPRTLEEFTGQVEACSNLKVFIEAAKARAEALDHVLFV 60 MMDREGLLSRNVSQEDADISLLRPRTLEEFTGQVEACSNLKVFIEAAKARAEALDHVLFV Sbjct: 1 MMDREGLLSRNVSQEDADISLLRPRTLEEFTGQVEACSNLKVFIEAAKARAEALDHVLFV 60 Query: 61 GPPGLGKTTLAQVVARELGVNFRSTSGPVIAKAGDLAALLTNLEDRDVLFIDEIHRLSII 120 GPPGLGKTTLAQVVARELGVNFRSTSGPVIAKAGDLAALLTNLEDRDVLFIDEIHRLSII Sbjct: 61 GPPGLGKTTLAQVVARELGVNFRSTSGPVIAKAGDLAALLTNLEDRDVLFIDEIHRLSII 120 Query: 121 VEEILYPAMEDFQLDLMVGEGPSARSVKINLSRFTLIAATTRVGLLTNPLQDRFGIPIRL 180 VEEILYPAMEDFQLDLMVGEGPSARSVKINLSRFTLIAATTRVGLLTNPLQDRFGIPIRL Sbjct: 121 VEEILYPAMEDFQLDLMVGEGPSARSVKINLSRFTLIAATTRVGLLTNPLQDRFGIPIRL 180 Query: 181 NFYEIEDLKTIVQRGAKLTGLAVTDEAACEIAMRSRGTPRIAGRLLRRVRDFAEVAHAKT 240 NFYEIEDLKTIVQRGAKLTGLAVTDEAACEIAMRSRGTPRIAGRLLRRVRDFAEVAHAKT Sbjct: 181 NFYEIEDLKTIVQRGAKLTGLAVTDEAACEIAMRSRGTPRIAGRLLRRVRDFAEVAHAKT 240 Query: 241 ITREIADAALLRLAIDKMGFDQLDLRYLTMIARNFGGGPVGIETISAGLSEPRDAIEDLI 300 ITREIADAALLRLAIDKMGFDQLDLRYLTMIARNFGGGPVGIETISAGLSEPRDAIEDLI Sbjct: 241 ITREIADAALLRLAIDKMGFDQLDLRYLTMIARNFGGGPVGIETISAGLSEPRDAIEDLI 300 Query: 301 EPYMIQQGFIQRTPRGRLLMPIAWQHLGIDIPHR 334 EPYMIQQGFIQRTPRGRLLMPIAWQHLGIDIPHR Sbjct: 301 EPYMIQQGFIQRTPRGRLLMPIAWQHLGIDIPHR 334 >gi|254780271|ref|YP_003064684.1| ATP-dependent protease ATP-binding subunit ClpX [Candidatus Liberibacter asiaticus str. psy62] Length = 424 Score = 40.8 bits (94), Expect = 3e-05, Method: Compositional matrix adjust. Identities = 24/80 (30%), Positives = 39/80 (48%), Gaps = 14/80 (17%) Query: 53 ALDHVLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAKAGDLAALLTNL--------- 103 A ++L VGP G GKT LAQ +AR + V F + +AG + + N+ Sbjct: 112 AKSNILLVGPTGCGKTYLAQTLARIIDVPFTMADATTLTEAGYVGEDVENIILKLLQAAD 171 Query: 104 -----EDRDVLFIDEIHRLS 118 R +++IDE+ ++S Sbjct: 172 YNVERAQRGIVYIDEVDKIS 191 >gi|254780270|ref|YP_003064683.1| ATP-dependent protease La [Candidatus Liberibacter asiaticus str. psy62] Length = 820 Score = 38.5 bits (88), Expect = 2e-04, Method: Compositional matrix adjust. Identities = 54/182 (29%), Positives = 80/182 (43%), Gaps = 40/182 (21%) Query: 57 VLFVGPPGLGKTTLAQVVARELGVNF-RSTSGPVIAKA---GDLAALLTNLEDRDV---- 108 + FVGPPG+GKT+LAQ +A+ G + R + G V +A G + ++ R + Sbjct: 369 LCFVGPPGVGKTSLAQSIAKATGRQYVRMSLGGVYDEADIRGHRRTYIGSMPGRIIQSLK 428 Query: 109 --------LFIDEIHRL--------SIIVEEILYPAMEDFQLDLMVGEGPSARSVKINLS 152 L +DEI ++ S + E+L PA +D + V+ +LS Sbjct: 429 RAKRSNPLLLLDEIDKMGSDLRGDPSAALLEVLDPAQNSSFVDHYL-------EVEYDLS 481 Query: 153 --RFTLIAATTRVGLLTNPLQDRFGIPIRLNFY-EIEDLKTIVQRGAK--LTGLAVTDEA 207 F + A T + L PL DR I IR+ Y E E L+ K LT A+ E Sbjct: 482 DVMFIMTANTLNIPL---PLMDRMEI-IRIAGYTEEEKLQIAKNHLVKKVLTEHALKQEE 537 Query: 208 AC 209 C Sbjct: 538 CC 539 >gi|254780545|ref|YP_003064958.1| metalloprotease [Candidatus Liberibacter asiaticus str. psy62] Length = 647 Score = 37.7 bits (86), Expect = 3e-04, Method: Compositional matrix adjust. Identities = 19/31 (61%), Positives = 21/31 (67%) Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRSTSG 87 VL VGPPG GKT LA+ VA E V F + SG Sbjct: 184 VLLVGPPGTGKTLLARAVAGEANVPFFTISG 214 >gi|254780163|ref|YP_003064576.1| ATP-dependent Clp protease ATP-binding subunit [Candidatus Liberibacter asiaticus str. psy62] Length = 798 Score = 30.0 bits (66), Expect = 0.053, Method: Compositional matrix adjust. Identities = 19/53 (35%), Positives = 29/53 (54%), Gaps = 4/53 (7%) Query: 32 GQVEACSNLKVFIEAAKAR----AEALDHVLFVGPPGLGKTTLAQVVARELGV 80 GQ EA L I+ A+A + + +F GP G+GKT +++ +A LGV Sbjct: 481 GQEEAIKKLSSSIKIARAGLSDPNKPIGCYVFSGPTGVGKTEISKQLAFALGV 533 Score = 29.6 bits (65), Expect = 0.081, Method: Compositional matrix adjust. Identities = 30/101 (29%), Positives = 46/101 (45%), Gaps = 29/101 (28%) Query: 58 LFVGPPGLGKTTLAQVVARE----------LGVN-FRSTSGPVIAKA---GD----LAAL 99 L+VG PG+GKT +A+ A++ LG F G +IA GD + + Sbjct: 229 LYVGDPGVGKTAIAEGFAKQIVDGMVPDILLGARIFSLDMGNLIAGTRYRGDFEERIKKI 288 Query: 100 LTNLED--RDVLFIDEIHRL---------SIIVEEILYPAM 129 + +E +L+IDEIH L S+ +L PA+ Sbjct: 289 VKEIESYANAILYIDEIHTLVGAGSASGISVDASNLLKPAL 329 >gi|254780567|ref|YP_003064980.1| hypothetical protein CLIBASIA_02270 [Candidatus Liberibacter asiaticus str. psy62] Length = 246 Score = 29.6 bits (65), Expect = 0.072, Method: Compositional matrix adjust. Identities = 24/68 (35%), Positives = 34/68 (50%), Gaps = 8/68 (11%) Query: 57 VLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAKAGDLAALLTN----LEDRDVLFID 112 V+ VGP G GK+ LA + + + RST IAK+ D + T LED D+L + Sbjct: 67 VILVGPSGSGKSCLANIWSDKS----RSTRFSNIAKSLDSILIDTRKPVLLEDIDLLDFN 122 Query: 113 EIHRLSII 120 + II Sbjct: 123 DTQLFHII 130 >gi|254780877|ref|YP_003065290.1| ATP-dependent Clp protease, ATP-binding subunit protein [Candidatus Liberibacter asiaticus str. psy62] Length = 853 Score = 29.3 bits (64), Expect = 0.089, Method: Compositional matrix adjust. Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 1/47 (2%) Query: 31 TGQVEACSN-LKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVAR 76 + VE+ SN L+ F + + +F+GP G+GKT L + +AR Sbjct: 574 SAAVESVSNALRRFRAGLQDPQRPMGSFMFLGPTGVGKTELVKSLAR 620 Score = 23.9 bits (50), Expect = 4.3, Method: Compositional matrix adjust. Identities = 22/81 (27%), Positives = 40/81 (49%), Gaps = 21/81 (25%) Query: 58 LFVGPPGLGKTTL-----AQVVARELGVNFRSTS------GPVIAKA---GD----LAAL 99 + +G PG+GKT + ++++ ++ + + G +IA A G+ L +L Sbjct: 203 VLIGDPGVGKTAIIEGLASRIINGDIPESLKGKRLMALDMGALIAGAKFRGEFEERLKSL 262 Query: 100 LTNLEDRD---VLFIDEIHRL 117 L + D +LFIDE+H L Sbjct: 263 LCEIRSEDGEIILFIDELHVL 283 >gi|254780829|ref|YP_003065242.1| ATP-dependent protease ATP-binding subunit [Candidatus Liberibacter asiaticus str. psy62] Length = 437 Score = 29.3 bits (64), Expect = 0.089, Method: Compositional matrix adjust. Identities = 12/27 (44%), Positives = 19/27 (70%) Query: 56 HVLFVGPPGLGKTTLAQVVARELGVNF 82 ++L VGP G+GKT +++ +AR G F Sbjct: 55 NILLVGPTGVGKTAISRRLARLAGAPF 81 >gi|254780240|ref|YP_003064653.1| adenylate kinase [Candidatus Liberibacter asiaticus str. psy62] Length = 201 Score = 28.5 bits (62), Expect = 0.15, Method: Compositional matrix adjust. Identities = 13/30 (43%), Positives = 20/30 (66%) Query: 56 HVLFVGPPGLGKTTLAQVVARELGVNFRST 85 ++F+GPPG GK T A ++++L V ST Sbjct: 2 RIIFLGPPGSGKGTQACRLSQKLNVPQLST 31 >gi|254780332|ref|YP_003064745.1| replicative DNA helicase [Candidatus Liberibacter asiaticus str. psy62] Length = 504 Score = 26.9 bits (58), Expect = 0.48, Method: Compositional matrix adjust. Identities = 10/30 (33%), Positives = 19/30 (63%) Query: 55 DHVLFVGPPGLGKTTLAQVVARELGVNFRS 84 D ++ G PG+GKT+LA +A + +++ Sbjct: 220 DLIIIAGRPGMGKTSLATNIAYNVADAYKA 249 >537021.9.peg.472_1 Length = 369 Score = 26.9 bits (58), Expect = 0.51, Method: Compositional matrix adjust. Identities = 23/88 (26%), Positives = 39/88 (44%), Gaps = 8/88 (9%) Query: 58 LFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAKA--GDLAALLTNLEDRDVLFIDEIH 115 + G G+GKTT A+++AR L P + G+ + DV+ +D Sbjct: 25 MLSGTRGIGKTTTARIIARSLNYKTAHIDVPTVEFEGFGEHCQAIIRGNHVDVVELDAAS 84 Query: 116 RLSI-----IVEEILY-PAMEDFQLDLM 137 SI I+++I Y P F++ +M Sbjct: 85 HTSIDDVREIIDQIYYKPISARFRVYIM 112 >gi|254780766|ref|YP_003065179.1| recombination protein F [Candidatus Liberibacter asiaticus str. psy62] Length = 375 Score = 26.6 bits (57), Expect = 0.71, Method: Compositional matrix adjust. Identities = 13/40 (32%), Positives = 21/40 (52%), Gaps = 1/40 (2%) Query: 56 HVLFVGPPGLGKTTLAQVVAR-ELGVNFRSTSGPVIAKAG 94 H +FVG G+GKT + + ++ G FR S + + G Sbjct: 29 HTIFVGDNGVGKTNILEAISFLSPGRGFRRASYADVTRIG 68 >gi|254780826|ref|YP_003065239.1| phosphoenolpyruvate carboxykinase [Candidatus Liberibacter asiaticus str. psy62] Length = 509 Score = 25.0 bits (53), Expect = 2.0, Method: Compositional matrix adjust. Identities = 14/27 (51%), Positives = 15/27 (55%) Query: 52 EALDHVLFVGPPGLGKTTLAQVVAREL 78 E D LF G G GKTTL+ V R L Sbjct: 216 EKEDVALFFGLSGTGKTTLSASVDRFL 242 >gi|254780222|ref|YP_003064635.1| DNA topoisomerase IV subunit B [Candidatus Liberibacter asiaticus str. psy62] Length = 686 Score = 24.6 bits (52), Expect = 2.2, Method: Compositional matrix adjust. Identities = 14/51 (27%), Positives = 24/51 (47%) Query: 143 SARSVKINLSRFTLIAATTRVGLLTNPLQDRFGIPIRLNFYEIEDLKTIVQ 193 +AR +K+ S+ L + +++GIP + FY LKT +Q Sbjct: 224 AARLLKMTQSKAYLSGRVKTCWSCDKEIAEKYGIPEKEEFYFPGGLKTYLQ 274 >gi|254780559|ref|YP_003064972.1| thiamine transporter ATP-binding subunit [Candidatus Liberibacter asiaticus str. psy62] Length = 234 Score = 24.6 bits (52), Expect = 2.3, Method: Compositional matrix adjust. Identities = 13/42 (30%), Positives = 23/42 (54%), Gaps = 3/42 (7%) Query: 34 VEACSNLKVFIEAAKARAEALDHVLFVGPPGLGKTTLAQVVA 75 + NLK+ + +AE ++ +GP G GK+TL ++A Sbjct: 8 IYCYDNLKMQFDFQVNKAE---RIVILGPSGAGKSTLLSLMA 46 >gi|254780810|ref|YP_003065223.1| transcription termination factor Rho [Candidatus Liberibacter asiaticus str. psy62] Length = 423 Score = 24.6 bits (52), Expect = 2.6, Method: Compositional matrix adjust. Identities = 11/24 (45%), Positives = 13/24 (54%) Query: 58 LFVGPPGLGKTTLAQVVARELGVN 81 L V PP GKT L Q +A + N Sbjct: 178 LIVAPPRTGKTILLQNIAHSIKKN 201 >gi|254780371|ref|YP_003064784.1| diaminopimelate decarboxylase protein [Candidatus Liberibacter asiaticus str. psy62] Length = 431 Score = 24.3 bits (51), Expect = 2.8, Method: Compositional matrix adjust. Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 6/47 (12%) Query: 157 IAATTRVGLLTNPLQDRFGIPIRLNFYEIEDLKTIVQR--GAKLTGL 201 I A T + T +D+FGIPI ++I L G K++G+ Sbjct: 154 INANTHKKISTGKKEDKFGIPI----HQIHSLYAYASTLPGVKISGV 196 >gi|254781060|ref|YP_003065473.1| ABC transporter, nucleotide binding/ATPase protein [Candidatus Liberibacter asiaticus str. psy62] Length = 249 Score = 24.3 bits (51), Expect = 3.3, Method: Compositional matrix adjust. Identities = 13/51 (25%), Positives = 26/51 (50%), Gaps = 2/51 (3%) Query: 43 FIEAAKARAEALDHVLFVGPPGLGKTTLAQVVARELGVNFRSTSGPVIAKA 93 I + E + V +GP G GK+TL+ +++ ++ T+G ++ K Sbjct: 18 IIRGLNLKVEPSEVVAIMGPNGSGKSTLSYLLSGH--KDYEITAGDILYKG 66 >gi|254780718|ref|YP_003065131.1| putative high-affinity zinc uptake system ATP-binding component of ABC transporter protein [Candidatus Liberibacter asiaticus str. psy62] Length = 240 Score = 23.5 bits (49), Expect = 5.2, Method: Compositional matrix adjust. Identities = 8/19 (42%), Positives = 14/19 (73%) Query: 57 VLFVGPPGLGKTTLAQVVA 75 V +GP G GK+T+A+++ Sbjct: 39 VTLIGPNGSGKSTIAKLIT 57 >gi|254780659|ref|YP_003065072.1| hypothetical protein CLIBASIA_02730 [Candidatus Liberibacter asiaticus str. psy62] Length = 274 Score = 23.5 bits (49), Expect = 5.7, Method: Compositional matrix adjust. Identities = 10/25 (40%), Positives = 16/25 (64%) Query: 120 IVEEILYPAMEDFQLDLMVGEGPSA 144 IV E+L + DFQLD ++ G ++ Sbjct: 17 IVYEMLPRLIRDFQLDFVIANGENS 41 >537021.9.peg.410_1 Length = 952 Score = 23.1 bits (48), Expect = 6.3, Method: Compositional matrix adjust. Identities = 13/43 (30%), Positives = 24/43 (55%), Gaps = 2/43 (4%) Query: 92 KAGDLAALLTNLEDRDV--LFIDEIHRLSIIVEEILYPAMEDF 132 K D++A + D+++ + IDE+ S+I E++ EDF Sbjct: 161 KKRDVSAWIRYKIDQEINHILIDEVQDTSLIQWEVIRSLTEDF 203 >gi|254781123|ref|YP_003065536.1| putative ABC transporter, ATP-binding protein [Candidatus Liberibacter asiaticus str. psy62] Length = 610 Score = 23.1 bits (48), Expect = 7.4, Method: Compositional matrix adjust. Identities = 9/16 (56%), Positives = 12/16 (75%) Query: 60 VGPPGLGKTTLAQVVA 75 VGP G GKTTL +++ Sbjct: 316 VGPNGAGKTTLLKLLT 331 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 0.323 0.140 0.396 Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Hits to DB: 189,611 Number of Sequences: 1233 Number of extensions: 7291 Number of successful extensions: 56 Number of sequences better than 100.0: 25 Number of HSP's better than 100.0 without gapping: 23 Number of HSP's successfully gapped in prelim test: 2 Number of HSP's that attempted gapping in prelim test: 31 Number of HSP's gapped (non-prelim): 27 length of query: 334 length of database: 328,796 effective HSP length: 74 effective length of query: 260 effective length of database: 237,554 effective search space: 61764040 effective search space used: 61764040 T: 11 A: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 38 (19.2 bits)