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)