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|254780252|ref|YP_003064665.1| 30S ribosomal protein S17
[Candidatus Liberibacter asiaticus str. psy62]
         (79 letters)

Database: las_proteome 
           1233 sequences; 328,796 total letters

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



>gi|254780252|ref|YP_003064665.1| 30S ribosomal protein S17 [Candidatus Liberibacter asiaticus str.
          psy62]
          Length = 79

 Score =  160 bits (405), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 79/79 (100%), Positives = 79/79 (100%)

Query: 1  MPKRVLQGMVVSDKSEKTIIVLVERRFSHPRFQKTIRRSKRYAVHDENNKYKVGDFVSIE 60
          MPKRVLQGMVVSDKSEKTIIVLVERRFSHPRFQKTIRRSKRYAVHDENNKYKVGDFVSIE
Sbjct: 1  MPKRVLQGMVVSDKSEKTIIVLVERRFSHPRFQKTIRRSKRYAVHDENNKYKVGDFVSIE 60

Query: 61 ESAPISKKKSWLVIDSEGV 79
          ESAPISKKKSWLVIDSEGV
Sbjct: 61 ESAPISKKKSWLVIDSEGV 79


>gi|254780591|ref|YP_003065004.1| aminomethyltransferase protein (glycine cleavage) [Candidatus
          Liberibacter asiaticus str. psy62]
          Length = 273

 Score = 22.3 bits (46), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 15/60 (25%), Positives = 28/60 (46%)

Query: 1  MPKRVLQGMVVSDKSEKTIIVLVERRFSHPRFQKTIRRSKRYAVHDENNKYKVGDFVSIE 60
          +P ++ +G  +     K ++  +  +     F   I RSKR ++ D+   YK+   V IE
Sbjct: 34 LPYKIARGSAILTPQGKILLYFLISKIEEDTFILEIDRSKRDSLIDKLLFYKLRSNVIIE 93


>gi|254780920|ref|YP_003065333.1| dTDP-glucose 4,6-dehydratase [Candidatus Liberibacter asiaticus
           str. psy62]
          Length = 358

 Score = 21.9 bits (45), Expect = 2.1,   Method: Composition-based stats.
 Identities = 15/67 (22%), Positives = 26/67 (38%), Gaps = 9/67 (13%)

Query: 5   VLQGMVVSDKSEKTIIVLVERRFSHPRFQKTIRRSKRYAVHDENNKYKVGDFVSIEESAP 64
           +L  ++    S   +I  +E R  H R         RYA+     K ++G F      + 
Sbjct: 266 LLDALIPKSYSHTELIRFIEDRPGHDR---------RYAIDSSKIKSEIGWFPQENMESG 316

Query: 65  ISKKKSW 71
           ++K   W
Sbjct: 317 LNKTVCW 323


>gi|254780675|ref|YP_003065088.1| dihydrolipoamide dehydrogenase [Candidatus Liberibacter asiaticus
           str. psy62]
          Length = 481

 Score = 21.9 bits (45), Expect = 2.2,   Method: Compositional matrix adjust.
 Identities = 10/35 (28%), Positives = 18/35 (51%)

Query: 5   VLQGMVVSDKSEKTIIVLVERRFSHPRFQKTIRRS 39
           ++QG  ++   E T   L+   F HP   +T++ S
Sbjct: 436 LIQGFSIAMSLETTEEELMHTVFPHPTISETMKES 470


>gi|254781204|ref|YP_003065617.1| hypothetical protein CLIBASIA_05555 [Candidatus Liberibacter
           asiaticus str. psy62]
          Length = 707

 Score = 21.6 bits (44), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 12/25 (48%), Positives = 14/25 (56%)

Query: 13  DKSEKTIIVLVERRFSHPRFQKTIR 37
           DK  KTII+ VE      R + TIR
Sbjct: 671 DKEGKTIIINVEDVNRDERMESTIR 695


>gi|254780919|ref|YP_003065332.1| dTDP-4-dehydrorhamnose 3,5-epimerase [Candidatus Liberibacter
           asiaticus str. psy62]
          Length = 198

 Score = 21.2 bits (43), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 9/31 (29%), Positives = 18/31 (58%), Gaps = 5/31 (16%)

Query: 51  YKVGDFVSIEESAPISKKK-----SWLVIDS 76
           YKV DF S+E  + ++ +      +W ++D+
Sbjct: 127 YKVTDFYSVEHDSGVAWQDKSIDITWPLLDT 157


>gi|254780897|ref|YP_003065310.1| trigger factor [Candidatus Liberibacter asiaticus str. psy62]
          Length = 473

 Score = 20.8 bits (42), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 11/35 (31%), Positives = 17/35 (48%)

Query: 3   KRVLQGMVVSDKSEKTIIVLVERRFSHPRFQKTIR 37
           +RVL G+V+    EK  I + E       +Q+  R
Sbjct: 356 RRVLTGIVLGTIGEKNNIEVTEEEMQSALYQQLGR 390


>gi|254780445|ref|YP_003064858.1| isoleucyl-tRNA synthetase [Candidatus Liberibacter asiaticus str.
           psy62]
          Length = 963

 Score = 20.4 bits (41), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 8/31 (25%), Positives = 15/31 (48%)

Query: 31  RFQKTIRRSKRYAVHDENNKYKVGDFVSIEE 61
           + + TIR       HD  N+  + D  ++E+
Sbjct: 685 KLRNTIRWMLGMLAHDTGNEPSLADMPALEQ 715


>gi|254781225|ref|YP_003065638.1| P4 family phage/plasmid primase [Candidatus Liberibacter asiaticus
           str. psy62]
          Length = 789

 Score = 20.4 bits (41), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 12/34 (35%), Positives = 17/34 (50%)

Query: 37  RRSKRYAVHDENNKYKVGDFVSIEESAPISKKKS 70
           R SK+ + +DE N     D    EE    +KK+S
Sbjct: 252 RWSKQGSTYDEENFNYKWDTFDFEEIGDTAKKRS 285


>gi|254780137|ref|YP_003064550.1| malic enzyme [Candidatus Liberibacter asiaticus str. psy62]
          Length = 779

 Score = 20.0 bits (40), Expect = 7.0,   Method: Compositional matrix adjust.
 Identities = 12/32 (37%), Positives = 16/32 (50%), Gaps = 7/32 (21%)

Query: 33  QKTIRR-------SKRYAVHDENNKYKVGDFV 57
           Q  IRR       +K + V D NNK  + D+V
Sbjct: 495 QDNIRRHDLQIIATKDFDVIDLNNKQSLKDYV 526


>gi|254780991|ref|YP_003065404.1| excinuclease ABC subunit B [Candidatus Liberibacter asiaticus
          str. psy62]
          Length = 805

 Score = 20.0 bits (40), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 14/55 (25%), Positives = 26/55 (47%), Gaps = 1/55 (1%)

Query: 16 EKTIIVLVERRFSHPRFQKTIRRSKRYAVHDENNKYKVGDFVSIEESAPISKKKS 70
          +KT++    RR      +     +KR  +H   N    G+F S + S  +S+K++
Sbjct: 38 DKTMVADAMRRIRSEAGKHRKNAAKRMLIHQRENTASKGEFQS-QSSISMSEKQT 91


  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
   0.317    0.132    0.368 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 50,710
Number of Sequences: 1233
Number of extensions: 1686
Number of successful extensions: 16
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 16
length of query: 79
length of database: 328,796
effective HSP length: 49
effective length of query: 30
effective length of database: 268,379
effective search space:  8051370
effective search space used:  8051370
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (20.8 bits)
S2: 31 (16.5 bits)