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)