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|254780810|ref|YP_003065223.1| transcription termination
factor Rho [Candidatus Liberibacter asiaticus str. psy62]
(423 letters)
Database: las_proteome
1233 sequences; 328,796 total letters
Searching...................................................done
>gi|254780810|ref|YP_003065223.1| transcription termination factor Rho [Candidatus Liberibacter
asiaticus str. psy62]
Length = 423
Score = 860 bits (2221), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 423/423 (100%), Positives = 423/423 (100%)
Query: 1 MSEMKLQELKNKSPTKLLAFAESLEIENANVMRKQELMFSILKVLSGRDVEIIGEGVIEV 60
MSEMKLQELKNKSPTKLLAFAESLEIENANVMRKQELMFSILKVLSGRDVEIIGEGVIEV
Sbjct: 1 MSEMKLQELKNKSPTKLLAFAESLEIENANVMRKQELMFSILKVLSGRDVEIIGEGVIEV 60
Query: 61 LQDGFGFLRSPDANYLAGPDDIYVSPSQIKSFSLKTGDTVEGSIRAPREGERYFALLKVN 120
LQDGFGFLRSPDANYLAGPDDIYVSPSQIKSFSLKTGDTVEGSIRAPREGERYFALLKVN
Sbjct: 61 LQDGFGFLRSPDANYLAGPDDIYVSPSQIKSFSLKTGDTVEGSIRAPREGERYFALLKVN 120
Query: 121 AINFDVPERVRNKIHFDNLTPLYPDKRFNMELNNPENKDISSRVIDLIAPIGKGQRSLIV 180
AINFDVPERVRNKIHFDNLTPLYPDKRFNMELNNPENKDISSRVIDLIAPIGKGQRSLIV
Sbjct: 121 AINFDVPERVRNKIHFDNLTPLYPDKRFNMELNNPENKDISSRVIDLIAPIGKGQRSLIV 180
Query: 181 APPRTGKTILLQNIAHSIKKNHPECYLIVLLIDERPEEVTDMQRSVQGEVISSTFDESAA 240
APPRTGKTILLQNIAHSIKKNHPECYLIVLLIDERPEEVTDMQRSVQGEVISSTFDESAA
Sbjct: 181 APPRTGKTILLQNIAHSIKKNHPECYLIVLLIDERPEEVTDMQRSVQGEVISSTFDESAA 240
Query: 241 RHVQVAEMVIAKAKCLVEYGLDVVILLDSITRLCRAYNVLMPSSGKILTGGVDANALQRP 300
RHVQVAEMVIAKAKCLVEYGLDVVILLDSITRLCRAYNVLMPSSGKILTGGVDANALQRP
Sbjct: 241 RHVQVAEMVIAKAKCLVEYGLDVVILLDSITRLCRAYNVLMPSSGKILTGGVDANALQRP 300
Query: 301 KRFFGAARNIKEGGSLTIIGTALVDTGSRMDEVIFEEFKGTGNSEIVLERKIADKRIFPA 360
KRFFGAARNIKEGGSLTIIGTALVDTGSRMDEVIFEEFKGTGNSEIVLERKIADKRIFPA
Sbjct: 301 KRFFGAARNIKEGGSLTIIGTALVDTGSRMDEVIFEEFKGTGNSEIVLERKIADKRIFPA 360
Query: 361 MDIIKSGTRKEDLLVERQDLQKVFMLRRIVSSMNSSDAIEFLIDKLKQTKDNKDFFYSMN 420
MDIIKSGTRKEDLLVERQDLQKVFMLRRIVSSMNSSDAIEFLIDKLKQTKDNKDFFYSMN
Sbjct: 361 MDIIKSGTRKEDLLVERQDLQKVFMLRRIVSSMNSSDAIEFLIDKLKQTKDNKDFFYSMN 420
Query: 421 KQN 423
KQN
Sbjct: 421 KQN 423
>gi|254780684|ref|YP_003065097.1| flagellum-specific ATP synthase [Candidatus Liberibacter asiaticus
str. psy62]
Length = 438
Score = 67.8 bits (164), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 67/259 (25%), Positives = 121/259 (46%), Gaps = 30/259 (11%)
Query: 163 RVIDLIAPIGKGQRSLIVAPPRTGKTILLQNIAHSIKKNHPECY--LIVLLIDERPEEVT 220
RVID+ P+ GQR + A GK+ LL A S +C+ +I+ L+ ER EV
Sbjct: 150 RVIDIFTPLCHGQRIGVFAGSGIGKSTLLSMFARS------DCFDKVIISLVGERGREVR 203
Query: 221 DMQRSVQGE------VISSTFDESAARHVQVAEMVIAKAKCLVEYGLDVVILLDSITRLC 274
+ G+ V+ +T DES + A+ G +V+++LDSITR
Sbjct: 204 EFIEDYLGDNLKKSVVVVATSDESPILRKMAPLTAVTIAEYFSSKGDNVLLILDSITRFA 263
Query: 275 RAYNVLMPSSGKI-LTGGVDANAL-QRPKRFFGAARNIKEGGSLTIIGTALVDTGSRMDE 332
+ + +SG++ + G + + P+ + KE G++T + + LVD G ++
Sbjct: 264 HSIREIATNSGELPVARGYPTSVFSELPRLLERIGPSEKEKGNITAVISVLVD-GDNHND 322
Query: 333 VIFEEFKGTGNSEIVLERKIADKRIFPAMDIIKSGTRKEDLLVERQDLQKVFMLRRIVSS 392
I + + + IVL R +A++ +P +D + S +R D + +++VSS
Sbjct: 323 PIADSVRSILDGHIVLNRSLAEEGRYPPVDPLASVSRLADKAWSADE-------KKLVSS 375
Query: 393 MNSSDAIEFLIDKLKQTKD 411
+ LI + ++T+D
Sbjct: 376 LT------HLIHRFEETRD 388
>gi|254780615|ref|YP_003065028.1| F0F1 ATP synthase subunit beta [Candidatus Liberibacter asiaticus
str. psy62]
Length = 478
Score = 44.7 bits (104), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 55/225 (24%), Positives = 94/225 (41%), Gaps = 25/225 (11%)
Query: 163 RVIDLIAPIGKGQRSLIVAPPRTGKTILLQNIAHSIKKNHPECYLIVLLIDERPEEVTDM 222
+VIDLI+P KG + + GKT+L+ + +++ K H Y + + ER E D+
Sbjct: 138 KVIDLISPYQKGGKIGLFGGAGVGKTVLIMELINNVAKAH-GGYSVFAGVGERTREGNDL 196
Query: 223 Q------------RSVQGEVISS-------TFDESAARHVQVAEMVIAKAKCLVEYGLDV 263
R G + S +E +VA + A+ + G DV
Sbjct: 197 YHEMIDSKVNIDPRKNNGSAVGSKCSLLYGQMNEPPGARSRVALTGLTVAEHFRDQGQDV 256
Query: 264 VILLDSITRLCRAYNVLMPSSGKI--LTGGVDANALQRPKRFFGAARNIKEGGSLTIIGT 321
+ +D+I R +A + + G+I G AL+ + +K GS+T +
Sbjct: 257 LFFVDNIFRFTQANSEISALLGRIPSAVGYQSTLALEMGELQERITTTLK--GSITSVQA 314
Query: 322 ALVDTGSRMDEVIFEEFKGTGNSEIVLERKIADKRIFPAMDIIKS 366
V D F ++ VL R+I++K I+PA+D + S
Sbjct: 315 IYVPADDLTDPAPATSFTHL-DATTVLSRQISEKGIYPAIDPLDS 358
>gi|254780617|ref|YP_003065030.1| F0F1 ATP synthase subunit alpha [Candidatus Liberibacter asiaticus
str. psy62]
Length = 509
Score = 38.5 bits (88), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 33/131 (25%), Positives = 59/131 (45%), Gaps = 13/131 (9%)
Query: 163 RVIDLIAPIGKGQRSLIVAPPRTGKTILL------QNIAHSIKKNHPECYLIVLLIDERP 216
+ ID + PIG+GQR LI+ +TGKT ++ Q +H + Y I + I ++
Sbjct: 151 KAIDSLIPIGRGQRELIIGDRKTGKTSIILDTFLNQKSSHDKGSEKDKVYCIYVAIGQKR 210
Query: 217 EEVTDMQRSVQ--GEVISSTFDESAARHVQVAEMVIAKAKCLV-EY----GLDVVILLDS 269
V ++++ G + S ++A +++ A C + EY G +I D
Sbjct: 211 SSVARFVKALEDRGALSYSIVVVASASDPAPMQLLAPFAGCAMGEYFRDNGYHALIAYDD 270
Query: 270 ITRLCRAYNVL 280
+ + AY L
Sbjct: 271 LQKHAVAYRQL 281
>gi|254781123|ref|YP_003065536.1| putative ABC transporter, ATP-binding protein [Candidatus
Liberibacter asiaticus str. psy62]
Length = 610
Score = 27.7 bits (60), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 41/91 (45%), Gaps = 15/91 (16%)
Query: 164 VIDLIAPIGKGQRSLIVAPPRTGKTILLQNIAHSIKKNHPECYLIVL-------LIDERP 216
V D I G+ IV P GKT LL+ + IK P+C I L ID++
Sbjct: 300 VKDFSLRIHYGECIGIVGPNGAGKTTLLKLLTGKIK---PDCGFITLGTNLKIATIDQKR 356
Query: 217 EEVTDMQRSVQGEVISSTFDE----SAARHV 243
E++ D +S+ + S+ D +RHV
Sbjct: 357 EDI-DPDKSLASYLTGSSGDSLMVRGESRHV 386
>gi|254781043|ref|YP_003065456.1| succinate dehydrogenase flavoprotein subunit [Candidatus
Liberibacter asiaticus str. psy62]
Length = 611
Score = 27.7 bits (60), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 37/73 (50%), Gaps = 8/73 (10%)
Query: 292 VDANALQRPKRFFGAARNIKEGGSLTIIGTALVDTGSRMDEVIFEEFKGTGNSEIVLERK 351
+DAN+ + P+RF I E G ++ G + + S +D V+F G + ++ +
Sbjct: 379 LDANS-KNPERFAPGLMAIGEAGCASVHGANRLGSNSLIDLVVF------GRAAVIRASE 431
Query: 352 IADKRI-FPAMDI 363
+ DK P++DI
Sbjct: 432 MIDKSSPIPSLDI 444
>gi|254780545|ref|YP_003064958.1| metalloprotease [Candidatus Liberibacter asiaticus str. psy62]
Length = 647
Score = 26.6 bits (57), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 178 LIVAPPRTGKTILLQNIA 195
L+V PP TGKT+L + +A
Sbjct: 185 LLVGPPGTGKTLLARAVA 202
>gi|254780270|ref|YP_003064683.1| ATP-dependent protease La [Candidatus Liberibacter asiaticus str.
psy62]
Length = 820
Score = 25.0 bits (53), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 173 KGQRSLIVAPPRTGKTILLQNIAHSIKKNH 202
KG V PP GKT L Q+IA + + +
Sbjct: 365 KGLILCFVGPPGVGKTSLAQSIAKATGRQY 394
>gi|254780382|ref|YP_003064795.1| ATP dependent RNA helicase protein [Candidatus Liberibacter
asiaticus str. psy62]
Length = 465
Score = 25.0 bits (53), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 9/16 (56%), Positives = 10/16 (62%)
Query: 120 NAINFDVPERVRNKIH 135
+ NFDVP R N IH
Sbjct: 316 HVFNFDVPNRAENYIH 331
>gi|254780173|ref|YP_003064586.1| ABC transporter related protein [Candidatus Liberibacter asiaticus
str. psy62]
Length = 257
Score = 25.0 bits (53), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 9/24 (37%), Positives = 16/24 (66%)
Query: 173 KGQRSLIVAPPRTGKTILLQNIAH 196
+G+R +I P +GK+ L++ I H
Sbjct: 42 RGERVIIAGPSGSGKSTLIRCINH 65
>gi|254780552|ref|YP_003064965.1| Holliday junction DNA helicase RuvB [Candidatus Liberibacter
asiaticus str. psy62]
Length = 334
Score = 24.6 bits (52), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 178 LIVAPPRTGKTILLQNIAHSIKKN 201
L V PP GKT L Q +A + N
Sbjct: 58 LFVGPPGLGKTTLAQVVARELGVN 81
>gi|254780229|ref|YP_003064642.1| hypothetical protein CLIBASIA_00570 [Candidatus Liberibacter
asiaticus str. psy62]
Length = 1775
Score = 24.3 bits (51), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 4/33 (12%)
Query: 162 SRVIDLIAPIGKGQRSLIVAPPRTGKTILLQNI 194
S VID+I G+ +I PP TGK+ + NI
Sbjct: 411 SAVIDVI----NGKNLIIEGPPGTGKSQTITNI 439
>gi|254780332|ref|YP_003064745.1| replicative DNA helicase [Candidatus Liberibacter asiaticus str.
psy62]
Length = 504
Score = 23.9 bits (50), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 3/42 (7%)
Query: 160 ISSRVIDLIAPIGKGQRS---LIVAPPRTGKTILLQNIAHSI 198
+S+ + L +G QRS +I P GKT L NIA+++
Sbjct: 202 VSTGIQTLDKQMGGLQRSDLIIIAGRPGMGKTSLATNIAYNV 243
>gi|254780349|ref|YP_003064762.1| serine hydroxymethyltransferase [Candidatus Liberibacter asiaticus
str. psy62]
Length = 433
Score = 23.5 bits (49), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 12/45 (26%), Positives = 21/45 (46%)
Query: 332 EVIFEEFKGTGNSEIVLERKIADKRIFPAMDIIKSGTRKEDLLVE 376
E + EF+ ++ + +A K F DI+ GT +LV+
Sbjct: 283 EALSSEFRDYAKQIVLNSQALAKKLQFLGFDIVSGGTDNHLMLVD 327
>gi|254780376|ref|YP_003064789.1| flagellar basal body P-ring protein [Candidatus Liberibacter
asiaticus str. psy62]
Length = 369
Score = 23.5 bits (49), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 19/30 (63%)
Query: 41 ILKVLSGRDVEIIGEGVIEVLQDGFGFLRS 70
++ + SGRD ++IG G++ LQ LRS
Sbjct: 29 VVSLQSGRDNQLIGYGLVVGLQGTGDSLRS 58
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 0.136 0.375
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 265,706
Number of Sequences: 1233
Number of extensions: 11534
Number of successful extensions: 59
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 39
Number of HSP's gapped (non-prelim): 25
length of query: 423
length of database: 328,796
effective HSP length: 76
effective length of query: 347
effective length of database: 235,088
effective search space: 81575536
effective search space used: 81575536
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 40 (20.0 bits)