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.


Reference for composition-based statistics starting in round 2:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,  
Eugene V. Koonin, and Stephen F. Altschul (2001), 
"Improving the accuracy of PSI-BLAST protein database searches with 
composition-based statistics and other refinements",  Nucleic Acids Res. 29:2994-3005.

Query= gi|254781001|ref|YP_003065414.1| hypothetical protein
CLIBASIA_04510 [Candidatus Liberibacter asiaticus str. psy62]
         (93 letters)

Database: nr 
           14,124,377 sequences; 4,842,793,630 total letters

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


Results from round 1


>gi|254781001|ref|YP_003065414.1| hypothetical protein CLIBASIA_04510 [Candidatus Liberibacter
          asiaticus str. psy62]
 gi|254040678|gb|ACT57474.1| hypothetical protein CLIBASIA_04510 [Candidatus Liberibacter
          asiaticus str. psy62]
          Length = 93

 Score =  189 bits (480), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 93/93 (100%), Positives = 93/93 (100%)

Query: 1  MTISSPSLSDYLKIEHYMLHSFIEGPTKAIVIIWLSIFSMPSGSIEYRDTLDERVANSGL 60
          MTISSPSLSDYLKIEHYMLHSFIEGPTKAIVIIWLSIFSMPSGSIEYRDTLDERVANSGL
Sbjct: 1  MTISSPSLSDYLKIEHYMLHSFIEGPTKAIVIIWLSIFSMPSGSIEYRDTLDERVANSGL 60

Query: 61 YMIVKKALVRSKKRKIAVPSRQVTDLYKETLFP 93
          YMIVKKALVRSKKRKIAVPSRQVTDLYKETLFP
Sbjct: 61 YMIVKKALVRSKKRKIAVPSRQVTDLYKETLFP 93


>gi|238754704|ref|ZP_04616056.1| HTH-type transcriptional repressor fabR [Yersinia ruckeri ATCC
           29473]
 gi|238707012|gb|EEP99377.1| HTH-type transcriptional repressor fabR [Yersinia ruckeri ATCC
           29473]
          Length = 211

 Score = 40.0 bits (92), Expect = 0.10,   Method: Compositional matrix adjust.
 Identities = 30/79 (37%), Positives = 43/79 (54%), Gaps = 10/79 (12%)

Query: 6   PSLSDYLKIEHYMLHSFIEGPTKAIVIIWLSIFSMPSG----SIEYRDTLDERVANSGLY 61
             L+DYL++EH+M  SF E   +A+V I   +FS  +      IE R  L+ER+    L 
Sbjct: 133 AELADYLELEHHMPRSFTEAQAEAMVTI---VFSAGAEVLDVDIEQRRQLEERLVLQ-LR 188

Query: 62  MIVKKAL--VRSKKRKIAV 78
           MI K A    R ++ K+AV
Sbjct: 189 MISKGAYYWYRREQEKLAV 207


>gi|238750872|ref|ZP_04612370.1| HTH-type transcriptional repressor fabR [Yersinia rohdei ATCC
           43380]
 gi|238711016|gb|EEQ03236.1| HTH-type transcriptional repressor fabR [Yersinia rohdei ATCC
           43380]
          Length = 210

 Score = 38.1 bits (87), Expect = 0.43,   Method: Compositional matrix adjust.
 Identities = 29/79 (36%), Positives = 44/79 (55%), Gaps = 10/79 (12%)

Query: 6   PSLSDYLKIEHYMLHSFIEGPTKAIVIIWLSIFSMPSGS----IEYRDTLDERVANSGLY 61
             L+DYL++E++M  SF E   +A+V I   +FS  + +    IE R  L+ER+    L 
Sbjct: 133 AELADYLELENHMPRSFTEAQAEAMVTI---VFSAGAEALDVDIEQRRQLEERLVLQ-LR 188

Query: 62  MIVKKAL--VRSKKRKIAV 78
           MI K A    R ++ K+AV
Sbjct: 189 MISKGAYYWYRREQEKLAV 207


>gi|238794890|ref|ZP_04638489.1| HTH-type transcriptional repressor fabR [Yersinia intermedia ATCC
           29909]
 gi|238725765|gb|EEQ17320.1| HTH-type transcriptional repressor fabR [Yersinia intermedia ATCC
           29909]
          Length = 210

 Score = 37.4 bits (85), Expect = 0.67,   Method: Compositional matrix adjust.
 Identities = 29/79 (36%), Positives = 43/79 (54%), Gaps = 10/79 (12%)

Query: 6   PSLSDYLKIEHYMLHSFIEGPTKAIVIIWLSIFSMPSG----SIEYRDTLDERVANSGLY 61
             L+DYL++E++M  SF E   +A+V I   +FS  +      IE R  L+ER+    L 
Sbjct: 133 AELADYLELENHMPRSFTEAQAEAMVTI---VFSAGAEVLDVDIEQRRQLEERLVLQ-LR 188

Query: 62  MIVKKAL--VRSKKRKIAV 78
           MI K A    R ++ K+AV
Sbjct: 189 MISKGAYYWYRREQEKLAV 207


>gi|238798325|ref|ZP_04641809.1| HTH-type transcriptional repressor fabR [Yersinia mollaretii ATCC
           43969]
 gi|238717872|gb|EEQ09704.1| HTH-type transcriptional repressor fabR [Yersinia mollaretii ATCC
           43969]
          Length = 211

 Score = 37.4 bits (85), Expect = 0.69,   Method: Compositional matrix adjust.
 Identities = 29/79 (36%), Positives = 43/79 (54%), Gaps = 10/79 (12%)

Query: 6   PSLSDYLKIEHYMLHSFIEGPTKAIVIIWLSIFSMPSG----SIEYRDTLDERVANSGLY 61
             L+DYL++E++M  SF E   +A+V I   +FS  +      IE R  L+ER+    L 
Sbjct: 133 AELADYLELENHMPRSFTEAQAEAMVTI---VFSAGAEVLDVDIEQRRQLEERLVLQ-LR 188

Query: 62  MIVKKAL--VRSKKRKIAV 78
           MI K A    R ++ K+AV
Sbjct: 189 MISKGAYYWYRREQEKLAV 207


>gi|238789622|ref|ZP_04633406.1| HTH-type transcriptional repressor fabR [Yersinia frederiksenii
           ATCC 33641]
 gi|238722375|gb|EEQ14031.1| HTH-type transcriptional repressor fabR [Yersinia frederiksenii
           ATCC 33641]
          Length = 211

 Score = 37.4 bits (85), Expect = 0.70,   Method: Compositional matrix adjust.
 Identities = 29/79 (36%), Positives = 43/79 (54%), Gaps = 10/79 (12%)

Query: 6   PSLSDYLKIEHYMLHSFIEGPTKAIVIIWLSIFSMPSG----SIEYRDTLDERVANSGLY 61
             L+DYL++E++M  SF E   +A+V I   +FS  +      IE R  L+ER+    L 
Sbjct: 133 AELADYLELENHMPRSFTEAQAEAMVTI---VFSAGAEVLDVDIEQRRQLEERLVLQ-LR 188

Query: 62  MIVKKAL--VRSKKRKIAV 78
           MI K A    R ++ K+AV
Sbjct: 189 MISKGAYYWYRREQEKLAV 207


>gi|307128961|ref|YP_003880977.1| DNA-binding transcriptional regulatory protein FabR [Dickeya
           dadantii 3937]
 gi|306526490|gb|ADM96420.1| DNA-binding transcriptional regulatory protein FabR [Dickeya
           dadantii 3937]
          Length = 212

 Score = 37.4 bits (85), Expect = 0.77,   Method: Compositional matrix adjust.
 Identities = 25/66 (37%), Positives = 38/66 (57%), Gaps = 8/66 (12%)

Query: 6   PSLSDYLKIEHYMLHSFIEGPTKAIVIIWLSIFSMPSGS----IEYRDTLDERVANSGLY 61
             L+DYL++E+++  SF E   +A+VII   +FS  + +    IE R  L+ER+    L 
Sbjct: 134 AELADYLEVENHIPRSFAEAQAEAMVII---VFSAGAEALDVDIEQRRQLEERLVLQ-LR 189

Query: 62  MIVKKA 67
           MI K A
Sbjct: 190 MIAKGA 195


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


Results from round 2





CONVERGED!
>gi|254781001|ref|YP_003065414.1| hypothetical protein CLIBASIA_04510 [Candidatus Liberibacter
          asiaticus str. psy62]
 gi|254040678|gb|ACT57474.1| hypothetical protein CLIBASIA_04510 [Candidatus Liberibacter
          asiaticus str. psy62]
          Length = 93

 Score =  181 bits (459), Expect = 3e-44,   Method: Composition-based stats.
 Identities = 93/93 (100%), Positives = 93/93 (100%)

Query: 1  MTISSPSLSDYLKIEHYMLHSFIEGPTKAIVIIWLSIFSMPSGSIEYRDTLDERVANSGL 60
          MTISSPSLSDYLKIEHYMLHSFIEGPTKAIVIIWLSIFSMPSGSIEYRDTLDERVANSGL
Sbjct: 1  MTISSPSLSDYLKIEHYMLHSFIEGPTKAIVIIWLSIFSMPSGSIEYRDTLDERVANSGL 60

Query: 61 YMIVKKALVRSKKRKIAVPSRQVTDLYKETLFP 93
          YMIVKKALVRSKKRKIAVPSRQVTDLYKETLFP
Sbjct: 61 YMIVKKALVRSKKRKIAVPSRQVTDLYKETLFP 93


>gi|238754704|ref|ZP_04616056.1| HTH-type transcriptional repressor fabR [Yersinia ruckeri ATCC
           29473]
 gi|238707012|gb|EEP99377.1| HTH-type transcriptional repressor fabR [Yersinia ruckeri ATCC
           29473]
          Length = 211

 Score = 38.9 bits (89), Expect = 0.22,   Method: Composition-based stats.
 Identities = 30/77 (38%), Positives = 43/77 (55%), Gaps = 10/77 (12%)

Query: 8   LSDYLKIEHYMLHSFIEGPTKAIVIIWLSIFSMPSG----SIEYRDTLDERVANSGLYMI 63
           L+DYL++EH+M  SF E   +A+V I   +FS  +      IE R  L+ER+    L MI
Sbjct: 135 LADYLELEHHMPRSFTEAQAEAMVTI---VFSAGAEVLDVDIEQRRQLEERLVLQ-LRMI 190

Query: 64  VKKAL--VRSKKRKIAV 78
            K A    R ++ K+AV
Sbjct: 191 SKGAYYWYRREQEKLAV 207


>gi|238750872|ref|ZP_04612370.1| HTH-type transcriptional repressor fabR [Yersinia rohdei ATCC
           43380]
 gi|238711016|gb|EEQ03236.1| HTH-type transcriptional repressor fabR [Yersinia rohdei ATCC
           43380]
          Length = 210

 Score = 36.6 bits (83), Expect = 1.1,   Method: Composition-based stats.
 Identities = 29/77 (37%), Positives = 44/77 (57%), Gaps = 10/77 (12%)

Query: 8   LSDYLKIEHYMLHSFIEGPTKAIVIIWLSIFSMPSGS----IEYRDTLDERVANSGLYMI 63
           L+DYL++E++M  SF E   +A+V I   +FS  + +    IE R  L+ER+    L MI
Sbjct: 135 LADYLELENHMPRSFTEAQAEAMVTI---VFSAGAEALDVDIEQRRQLEERLVLQ-LRMI 190

Query: 64  VKKAL--VRSKKRKIAV 78
            K A    R ++ K+AV
Sbjct: 191 SKGAYYWYRREQEKLAV 207


>gi|238794890|ref|ZP_04638489.1| HTH-type transcriptional repressor fabR [Yersinia intermedia ATCC
           29909]
 gi|238725765|gb|EEQ17320.1| HTH-type transcriptional repressor fabR [Yersinia intermedia ATCC
           29909]
          Length = 210

 Score = 36.2 bits (82), Expect = 1.6,   Method: Composition-based stats.
 Identities = 29/77 (37%), Positives = 43/77 (55%), Gaps = 10/77 (12%)

Query: 8   LSDYLKIEHYMLHSFIEGPTKAIVIIWLSIFSMPSG----SIEYRDTLDERVANSGLYMI 63
           L+DYL++E++M  SF E   +A+V I   +FS  +      IE R  L+ER+    L MI
Sbjct: 135 LADYLELENHMPRSFTEAQAEAMVTI---VFSAGAEVLDVDIEQRRQLEERLVLQ-LRMI 190

Query: 64  VKKAL--VRSKKRKIAV 78
            K A    R ++ K+AV
Sbjct: 191 SKGAYYWYRREQEKLAV 207


>gi|238789622|ref|ZP_04633406.1| HTH-type transcriptional repressor fabR [Yersinia frederiksenii
           ATCC 33641]
 gi|238722375|gb|EEQ14031.1| HTH-type transcriptional repressor fabR [Yersinia frederiksenii
           ATCC 33641]
          Length = 211

 Score = 36.2 bits (82), Expect = 1.6,   Method: Composition-based stats.
 Identities = 29/77 (37%), Positives = 43/77 (55%), Gaps = 10/77 (12%)

Query: 8   LSDYLKIEHYMLHSFIEGPTKAIVIIWLSIFSMPSG----SIEYRDTLDERVANSGLYMI 63
           L+DYL++E++M  SF E   +A+V I   +FS  +      IE R  L+ER+    L MI
Sbjct: 135 LADYLELENHMPRSFTEAQAEAMVTI---VFSAGAEVLDVDIEQRRQLEERLVLQ-LRMI 190

Query: 64  VKKAL--VRSKKRKIAV 78
            K A    R ++ K+AV
Sbjct: 191 SKGAYYWYRREQEKLAV 207


>gi|238798325|ref|ZP_04641809.1| HTH-type transcriptional repressor fabR [Yersinia mollaretii ATCC
           43969]
 gi|238717872|gb|EEQ09704.1| HTH-type transcriptional repressor fabR [Yersinia mollaretii ATCC
           43969]
          Length = 211

 Score = 36.2 bits (82), Expect = 1.6,   Method: Composition-based stats.
 Identities = 29/77 (37%), Positives = 43/77 (55%), Gaps = 10/77 (12%)

Query: 8   LSDYLKIEHYMLHSFIEGPTKAIVIIWLSIFSMPSG----SIEYRDTLDERVANSGLYMI 63
           L+DYL++E++M  SF E   +A+V I   +FS  +      IE R  L+ER+    L MI
Sbjct: 135 LADYLELENHMPRSFTEAQAEAMVTI---VFSAGAEVLDVDIEQRRQLEERLVLQ-LRMI 190

Query: 64  VKKAL--VRSKKRKIAV 78
            K A    R ++ K+AV
Sbjct: 191 SKGAYYWYRREQEKLAV 207


>gi|307128961|ref|YP_003880977.1| DNA-binding transcriptional regulatory protein FabR [Dickeya
           dadantii 3937]
 gi|306526490|gb|ADM96420.1| DNA-binding transcriptional regulatory protein FabR [Dickeya
           dadantii 3937]
          Length = 212

 Score = 35.4 bits (80), Expect = 2.4,   Method: Composition-based stats.
 Identities = 26/72 (36%), Positives = 41/72 (56%), Gaps = 8/72 (11%)

Query: 8   LSDYLKIEHYMLHSFIEGPTKAIVIIWLSIFSMPSGS----IEYRDTLDERVANSGLYMI 63
           L+DYL++E+++  SF E   +A+VII   +FS  + +    IE R  L+ER+    L MI
Sbjct: 136 LADYLEVENHIPRSFAEAQAEAMVII---VFSAGAEALDVDIEQRRQLEERLVLQ-LRMI 191

Query: 64  VKKALVRSKKRK 75
            K A    +K +
Sbjct: 192 AKGAYYWYRKEQ 203


  Database: nr
    Posted date:  May 22, 2011 12:22 AM
  Number of letters in database: 999,999,966
  Number of sequences in database:  2,987,313
  
  Database: /data/usr2/db/fasta/nr.01
    Posted date:  May 22, 2011 12:30 AM
  Number of letters in database: 999,999,796
  Number of sequences in database:  2,903,041
  
  Database: /data/usr2/db/fasta/nr.02
    Posted date:  May 22, 2011 12:36 AM
  Number of letters in database: 999,999,281
  Number of sequences in database:  2,904,016
  
  Database: /data/usr2/db/fasta/nr.03
    Posted date:  May 22, 2011 12:41 AM
  Number of letters in database: 999,999,960
  Number of sequences in database:  2,935,328
  
  Database: /data/usr2/db/fasta/nr.04
    Posted date:  May 22, 2011 12:46 AM
  Number of letters in database: 842,794,627
  Number of sequences in database:  2,394,679
  
Lambda     K      H
   0.320    0.135    0.380 

Lambda     K      H
   0.267   0.0414    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,594,845,467
Number of Sequences: 14124377
Number of extensions: 52212658
Number of successful extensions: 103879
Number of sequences better than 10.0: 13
Number of HSP's better than 10.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 103867
Number of HSP's gapped (non-prelim): 26
length of query: 93
length of database: 4,842,793,630
effective HSP length: 63
effective length of query: 30
effective length of database: 3,952,957,879
effective search space: 118588736370
effective search space used: 118588736370
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 75 (33.5 bits)