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|254780456|ref|YP_003064869.1| 30S ribosomal protein S1
[Candidatus Liberibacter asiaticus str. psy62]
         (576 letters)

Database: las_proteome 
           1233 sequences; 328,796 total letters

Searching...................................................done



>gi|254780456|ref|YP_003064869.1| 30S ribosomal protein S1 [Candidatus Liberibacter asiaticus str.
           psy62]
          Length = 576

 Score = 1155 bits (2989), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 576/576 (100%), Positives = 576/576 (100%)

Query: 1   MSFTNPSREDFATLLEESFTKKDLAENCVTKGIVVGLEKDTVVVDVGLKFEGRIPRREFM 60
           MSFTNPSREDFATLLEESFTKKDLAENCVTKGIVVGLEKDTVVVDVGLKFEGRIPRREFM
Sbjct: 1   MSFTNPSREDFATLLEESFTKKDLAENCVTKGIVVGLEKDTVVVDVGLKFEGRIPRREFM 60

Query: 61  GKGQYTPIKVGDEVEVYVERTENSFGEAVFSRDKALREGVWEKIEAKFRAGERIEGVIFN 120
           GKGQYTPIKVGDEVEVYVERTENSFGEAVFSRDKALREGVWEKIEAKFRAGERIEGVIFN
Sbjct: 61  GKGQYTPIKVGDEVEVYVERTENSFGEAVFSRDKALREGVWEKIEAKFRAGERIEGVIFN 120

Query: 121 QVKGGMTVDLNGEVAFLPRSQIDIRPVRDVTPLMHEPQLFEILKMDKRRGNIVVSRRAVL 180
           QVKGGMTVDLNGEVAFLPRSQIDIRPVRDVTPLMHEPQLFEILKMDKRRGNIVVSRRAVL
Sbjct: 121 QVKGGMTVDLNGEVAFLPRSQIDIRPVRDVTPLMHEPQLFEILKMDKRRGNIVVSRRAVL 180

Query: 181 EESRAEQRSEIVQKLEEGQVIEGTVKNITDYGVFVDLSGVDGLLHVTDIAWHRILHPSKV 240
           EESRAEQRSEIVQKLEEGQVIEGTVKNITDYGVFVDLSGVDGLLHVTDIAWHRILHPSKV
Sbjct: 181 EESRAEQRSEIVQKLEEGQVIEGTVKNITDYGVFVDLSGVDGLLHVTDIAWHRILHPSKV 240

Query: 241 LSIGQQVKVKIIRINQETHRISLGMKQLEKNPWDDVQDKYVEGSKVSGVVTNLTDYGVFV 300
           LSIGQQVKVKIIRINQETHRISLGMKQLEKNPWDDVQDKYVEGSKVSGVVTNLTDYGVFV
Sbjct: 241 LSIGQQVKVKIIRINQETHRISLGMKQLEKNPWDDVQDKYVEGSKVSGVVTNLTDYGVFV 300

Query: 301 ELQSGIEGLAHISQISWTKKNIHPSKILSVGQQVEVVILEVNPARKRISLGLKQALINPW 360
           ELQSGIEGLAHISQISWTKKNIHPSKILSVGQQVEVVILEVNPARKRISLGLKQALINPW
Sbjct: 301 ELQSGIEGLAHISQISWTKKNIHPSKILSVGQQVEVVILEVNPARKRISLGLKQALINPW 360

Query: 361 EEFSKSHPPGTEVEGEVKNKTDFGLFIGLDEHLDGMIHLSDLDWNRPGEKVIAEYAKGDI 420
           EEFSKSHPPGTEVEGEVKNKTDFGLFIGLDEHLDGMIHLSDLDWNRPGEKVIAEYAKGDI
Sbjct: 361 EEFSKSHPPGTEVEGEVKNKTDFGLFIGLDEHLDGMIHLSDLDWNRPGEKVIAEYAKGDI 420

Query: 421 VKAVVLDIDVGKERISLGVKQLSGSAPDVVDSVSSLRKNDVVSCEVISVSEGGIEVSLID 480
           VKAVVLDIDVGKERISLGVKQLSGSAPDVVDSVSSLRKNDVVSCEVISVSEGGIEVSLID
Sbjct: 421 VKAVVLDIDVGKERISLGVKQLSGSAPDVVDSVSSLRKNDVVSCEVISVSEGGIEVSLID 480

Query: 481 HKGINSFIRRSDLSRDRVDQDPGRFSKGQIVDACVVNVSKKDGKVSLSIKALEIAEEKGA 540
           HKGINSFIRRSDLSRDRVDQDPGRFSKGQIVDACVVNVSKKDGKVSLSIKALEIAEEKGA
Sbjct: 481 HKGINSFIRRSDLSRDRVDQDPGRFSKGQIVDACVVNVSKKDGKVSLSIKALEIAEEKGA 540

Query: 541 VAQFGSSDSGASLGDILGMALKNRGNDAGDSNDNQG 576
           VAQFGSSDSGASLGDILGMALKNRGNDAGDSNDNQG
Sbjct: 541 VAQFGSSDSGASLGDILGMALKNRGNDAGDSNDNQG 576


>gi|254780784|ref|YP_003065197.1| polynucleotide phosphorylase/polyadenylase [Candidatus Liberibacter
           asiaticus str. psy62]
          Length = 699

 Score = 44.7 bits (104), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 32/101 (31%), Positives = 54/101 (53%), Gaps = 3/101 (2%)

Query: 172 IVVSRRAVLEESRAEQRSEIVQKLEEGQVIEGTVKNITDYGVFVDLSGV-DGLLHVTDIA 230
           I  S  A +E +R   RS I    E  ++ +G V  + D+G FV   G  DGL+H++ ++
Sbjct: 595 IASSSLAEIEAAREMIRS-ITDVPEVNKIYKGQVVKVMDFGAFVHFCGARDGLVHISQLS 653

Query: 231 WHRILHPSKVLSIGQQVKVKIIRINQETHRISLGMKQLEKN 271
             R+   S V+  G  V VK++  + +  +I L MK +++N
Sbjct: 654 TERVAKTSDVVKEGDTVWVKLLDFD-DRGKIKLSMKVVDQN 693



 Score = 35.0 bits (79), Expect = 0.003,   Method: Compositional matrix adjust.
 Identities = 23/66 (34%), Positives = 36/66 (54%), Gaps = 2/66 (3%)

Query: 288 GVVTNLTDYGVFVELQSGIEGLAHISQISWTKKNIHPSKILSVGQQVEVVILEVNPARKR 347
           G V  + D+G FV      +GL HISQ+S T++    S ++  G  V V +L+ +  R +
Sbjct: 625 GQVVKVMDFGAFVHFCGARDGLVHISQLS-TERVAKTSDVVKEGDTVWVKLLDFDD-RGK 682

Query: 348 ISLGLK 353
           I L +K
Sbjct: 683 IKLSMK 688



 Score = 32.0 bits (71), Expect = 0.031,   Method: Compositional matrix adjust.
 Identities = 24/69 (34%), Positives = 36/69 (52%), Gaps = 6/69 (8%)

Query: 374 EGEVKNKTDFGLFIGLDEHLDGMIHLSDLDWNRPGEK--VIAEYAKGDIVKAVVLDI-DV 430
           +G+V    DFG F+      DG++H+S L   R  +   V+ E   GD V   +LD  D 
Sbjct: 624 KGQVVKVMDFGAFVHFCGARDGLVHISQLSTERVAKTSDVVKE---GDTVWVKLLDFDDR 680

Query: 431 GKERISLGV 439
           GK ++S+ V
Sbjct: 681 GKIKLSMKV 689


>gi|254780788|ref|YP_003065201.1| transcription elongation factor NusA [Candidatus Liberibacter
           asiaticus str. psy62]
          Length = 526

 Score = 29.6 bits (65), Expect = 0.14,   Method: Compositional matrix adjust.
 Identities = 30/126 (23%), Positives = 57/126 (45%), Gaps = 18/126 (14%)

Query: 140 SQIDIRPVRDVTP------LMHEPQLFEILKMDKRRGNIVVSRRAVLEESRAEQRSEIVQ 193
            QI ++  RD  P      ++ +P    +  MD  R  +  +++ ++++ R  +R     
Sbjct: 77  CQISLKVARDRDPSIDIGGVVSDP----LPPMDFGRVAVQSAKQVIIQKVREAERDRQYL 132

Query: 194 KLEE--GQVIEGTVKNITDYGVFVDLSGVDGLLHVTDIAWHRILHPSKVLSIGQQVKVKI 251
           + ++  G++I GTVK +    V VDL   DG++   +      L P      G +VK  I
Sbjct: 133 EFKDKVGEIISGTVKRVEYGNVIVDLGNSDGVIRRDETISRENLRP------GDRVKSYI 186

Query: 252 IRINQE 257
             + +E
Sbjct: 187 YDVRRE 192


>gi|254780875|ref|YP_003065288.1| protoporphyrinogen oxidase (methyltransferase) protein [Candidatus
           Liberibacter asiaticus str. psy62]
          Length = 264

 Score = 25.4 bits (54), Expect = 2.6,   Method: Compositional matrix adjust.
 Identities = 22/89 (24%), Positives = 42/89 (47%), Gaps = 14/89 (15%)

Query: 280 YVEGSKVSGVVTNLTDYGVFVELQSGIEGLAHISQIS-WTKKNIHPSKILSV----GQQV 334
           Y+E   V  +   + D+   + L  GI+GL+H   I+    ++++   + SV     Q+V
Sbjct: 174 YIESVIVDCLGLEVRDFDPRISLDGGIDGLSHYRTIADGVSRHLNKDGLCSVEIGYNQKV 233

Query: 335 EVVILEVNPARKRISLGLKQALINPWEEF 363
           +VV         RI    K  L+N ++++
Sbjct: 234 DVV---------RIFESRKLFLVNAFKDY 253


>gi|254780885|ref|YP_003065298.1| hypothetical protein CLIBASIA_03910 [Candidatus Liberibacter
           asiaticus str. psy62]
          Length = 207

 Score = 25.4 bits (54), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 13/29 (44%), Positives = 18/29 (62%)

Query: 450 VDSVSSLRKNDVVSCEVISVSEGGIEVSL 478
           VD+   L  N   SC+VI +SE G+ VS+
Sbjct: 130 VDAQLVLNDNTKHSCKVIDISESGVSVSV 158


>gi|254781039|ref|YP_003065452.1| putative glycerol-3-phosphate dehydrogenase [Candidatus
           Liberibacter asiaticus str. psy62]
          Length = 329

 Score = 24.3 bits (51), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 10/28 (35%), Positives = 18/28 (64%)

Query: 496 DRVDQDPGRFSKGQIVDACVVNVSKKDG 523
           ++ + D  +  +G I  +CV+N+SKK G
Sbjct: 268 EKQNPDQIQLVEGAIAVSCVINISKKMG 295


>gi|254781169|ref|YP_003065582.1| ascorbate-specific PTS system enzyme IIC/IIB [Candidatus
           Liberibacter asiaticus str. psy62]
          Length = 461

 Score = 24.3 bits (51), Expect = 5.7,   Method: Compositional matrix adjust.
 Identities = 12/23 (52%), Positives = 14/23 (60%)

Query: 114 IEGVIFNQVKGGMTVDLNGEVAF 136
           I  VIF  + G  T+ LNGEV F
Sbjct: 116 ILMVIFRHLTGIRTIVLNGEVMF 138


>gi|254780488|ref|YP_003064901.1| adenosylmethionine--8-amino-7-oxononanoate transaminase [Candidatus
           Liberibacter asiaticus str. psy62]
          Length = 423

 Score = 23.9 bits (50), Expect = 6.6,   Method: Compositional matrix adjust.
 Identities = 20/72 (27%), Positives = 32/72 (44%), Gaps = 1/72 (1%)

Query: 16  EESFTKKDLAENCVTKGIVVGLEKDTVVVDVGLKFEGRIPRREFMG-KGQYTPIKVGDEV 74
           EE  T  DL ++C T+ I   L +  ++   G++       +EFM    +Y  + + DEV
Sbjct: 178 EEQKTLDDLEKHCSTQKIAAFLVEPLILGAGGMQTYRPYILKEFMRITKKYDTLLIADEV 237

Query: 75  EVYVERTENSFG 86
                RT   F 
Sbjct: 238 MTGWGRTGKIFA 249


  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
   0.315    0.136    0.381 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 373,722
Number of Sequences: 1233
Number of extensions: 16705
Number of successful extensions: 65
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 34
Number of HSP's gapped (non-prelim): 12
length of query: 576
length of database: 328,796
effective HSP length: 79
effective length of query: 497
effective length of database: 231,389
effective search space: 115000333
effective search space used: 115000333
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 41 (20.4 bits)