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|254780306|ref|YP_003064719.1| DNA topoisomerase I
[Candidatus Liberibacter asiaticus str. psy62]
         (837 letters)

Database: las_proteome 
           1233 sequences; 328,796 total letters

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



>gi|254780306|ref|YP_003064719.1| DNA topoisomerase I [Candidatus Liberibacter asiaticus str. psy62]
          Length = 837

 Score = 1732 bits (4486), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 837/837 (100%), Positives = 837/837 (100%)

Query: 1   MNVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQK 60
           MNVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQK
Sbjct: 1   MNVIIVESPAKAKTISKYLGSNYKVLSSFGHIRDLPAKKGSVLPEKEFEMIWNIDPSSQK 60

Query: 61  HLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVV 120
           HLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVV
Sbjct: 61  HLQNIIHAVKSSTILILATDPDREGEAISWHVLDVLRQKNLIEKTKIQRVSFNAITKQVV 120

Query: 121 LNAMKSPRDINLDLVNAYLARRALDYLVGFNLSPILWQKLPGARSAGRVQSVALRLICNR 180
           LNAMKSPRDINLDLVNAYLARRALDYLVGFNLSPILWQKLPGARSAGRVQSVALRLICNR
Sbjct: 121 LNAMKSPRDINLDLVNAYLARRALDYLVGFNLSPILWQKLPGARSAGRVQSVALRLICNR 180

Query: 181 ENQIESFVSEEYWSLSVLLETPRNDKFTAHLTDFNGQRIEKKSISNKKEADDLISFVKKA 240
           ENQIESFVSEEYWSLSVLLETPRNDKFTAHLTDFNGQRIEKKSISNKKEADDLISFVKKA
Sbjct: 181 ENQIESFVSEEYWSLSVLLETPRNDKFTAHLTDFNGQRIEKKSISNKKEADDLISFVKKA 240

Query: 241 TYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEGIDVNGEIVGL 300
           TYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEGIDVNGEIVGL
Sbjct: 241 TYSVEKIENKPIKRNPWPAFTTSTLQQVASSRLGFSASHTMRIAQKLYEGIDVNGEIVGL 300

Query: 301 ITYMRTDGVHMSPDALEAVRRSITSHYGDHYLPEKPRIYSSKSKNAQEAHEAIRPNDFDF 360
           ITYMRTDGVHMSPDALEAVRRSITSHYGDHYLPEKPRIYSSKSKNAQEAHEAIRPNDFDF
Sbjct: 301 ITYMRTDGVHMSPDALEAVRRSITSHYGDHYLPEKPRIYSSKSKNAQEAHEAIRPNDFDF 360

Query: 361 LPSKMKQFLDSDQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLC 420
           LPSKMKQFLDSDQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLC
Sbjct: 361 LPSKMKQFLDSDQFQLYNLIWKRSVASQMASAKFERTTVNIIATYNDQIGHLRTTGSLLC 420

Query: 421 FDGFLKVWENQYDQEKNSEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSLIKKM 480
           FDGFLKVWENQYDQEKNSEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSLIKKM
Sbjct: 421 FDGFLKVWENQYDQEKNSEEDILLPYISANEQLIATETNASQHFTEPPPRYSESSLIKKM 480

Query: 481 EEIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADL 540
           EEIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADL
Sbjct: 481 EEIGIGRPSTYATILETLYKRKYVIAEKRKILPQNTGRIVTAFLENFFSQYVEYDFTADL 540

Query: 541 EEKLDEISTGKLNWKEVLHEFWEEFIEKIDSIKKLRISNVLDILNDTLSSVIFPPKENNE 600
           EEKLDEISTGKLNWKEVLHEFWEEFIEKIDSIKKLRISNVLDILNDTLSSVIFPPKENNE
Sbjct: 541 EEKLDEISTGKLNWKEVLHEFWEEFIEKIDSIKKLRISNVLDILNDTLSSVIFPPKENNE 600

Query: 601 DSRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQLTSNPQDIPEMKESVLLGNDLE 660
           DSRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQLTSNPQDIPEMKESVLLGNDLE
Sbjct: 601 DSRTCPECHTHSLSLKLSSKYGAFVGCTNYPECKYTRQLTSNPQDIPEMKESVLLGNDLE 660

Query: 661 TKESVTLRSGRFGLYVQRGDGKDAKRCSLPKTWKSDSVDYDKAMSLLSLPREIGIHPETQ 720
           TKESVTLRSGRFGLYVQRGDGKDAKRCSLPKTWKSDSVDYDKAMSLLSLPREIGIHPETQ
Sbjct: 661 TKESVTLRSGRFGLYVQRGDGKDAKRCSLPKTWKSDSVDYDKAMSLLSLPREIGIHPETQ 720

Query: 721 KNIIAGTGKYGYYLNHDGAYTKLESIEQVLTIDLEQAISCITEKKKIEKSSRKNSKNQGH 780
           KNIIAGTGKYGYYLNHDGAYTKLESIEQVLTIDLEQAISCITEKKKIEKSSRKNSKNQGH
Sbjct: 721 KNIIAGTGKYGYYLNHDGAYTKLESIEQVLTIDLEQAISCITEKKKIEKSSRKNSKNQGH 780

Query: 781 VIGTHPEGGSITVHNGRYGPYLHWKKINASLSKEESPDTVDLEKALKILNIKKQKKL 837
           VIGTHPEGGSITVHNGRYGPYLHWKKINASLSKEESPDTVDLEKALKILNIKKQKKL
Sbjct: 781 VIGTHPEGGSITVHNGRYGPYLHWKKINASLSKEESPDTVDLEKALKILNIKKQKKL 837


>gi|254780956|ref|YP_003065369.1| thymidylate synthase [Candidatus Liberibacter asiaticus str. psy62]
          Length = 264

 Score = 25.8 bits (55), Expect = 3.3,   Method: Compositional matrix adjust.
 Identities = 10/28 (35%), Positives = 16/28 (57%)

Query: 534 YDFTADLEEKLDEISTGKLNWKEVLHEF 561
           Y    DL +    ++T K++WK V+HE 
Sbjct: 32  YQMRFDLSKGFPLLTTKKVHWKSVVHEL 59


>gi|254780289|ref|YP_003064702.1| RNA polymerase sigma factor RpoD [Candidatus Liberibacter asiaticus
           str. psy62]
          Length = 682

 Score = 25.0 bits (53), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 10/18 (55%), Positives = 13/18 (72%)

Query: 197 VLLETPRNDKFTAHLTDF 214
           + LETP  D+ T+HL DF
Sbjct: 574 ISLETPIGDEDTSHLGDF 591


>gi|255764516|ref|YP_003084344.1| hypothetical protein CLIBASIA_05532 [Candidatus Liberibacter
           asiaticus str. psy62]
          Length = 341

 Score = 24.6 bits (52), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 14/54 (25%), Positives = 27/54 (50%), Gaps = 3/54 (5%)

Query: 30  GHIRDLPAKK---GSVLPEKEFEMIWNIDPSSQKHLQNIIHAVKSSTILILATD 80
           G + DL  +    G  L + +   +  +DP ++K+LQ+I   + S T+ +   D
Sbjct: 112 GIVNDLAIQTEDVGRKLEQIDLSKVEGLDPQTRKYLQDIQTQLTSDTLTLQLDD 165


  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    0.132    0.378 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 544,111
Number of Sequences: 1233
Number of extensions: 22808
Number of successful extensions: 83
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 73
Number of HSP's gapped (non-prelim): 12
length of query: 837
length of database: 328,796
effective HSP length: 82
effective length of query: 755
effective length of database: 227,690
effective search space: 171905950
effective search space used: 171905950
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.5 bits)
S2: 42 (20.8 bits)