RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 total letters

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

Query= gi|254781122|ref|YP_003065535.1| putative thiamine
pyrophosphokinase [Candidatus Liberibacter asiaticus str. psy62]
         (222 letters)



>gnl|CDD|162328 TIGR01378, thi_PPkinase, thiamine pyrophosphokinase.  This model
           has been revised. Originally, it described strictly
           eukaryotic thiamine pyrophosphokinase. However, it is
           now expanded to include also homologous enzymes,
           apparently functionally equivalent, from species that
           rely on thiamine pyrophosphokinase rather than
           thiamine-monophosphate kinase (TIGR01379) to produce the
           active TPP cofactor. This includes the thiamine
           pyrophosphokinase from Bacillus subtilis, previously
           designated YloS.
          Length = 203

 Score =  146 bits (371), Expect = 4e-36
 Identities = 66/204 (32%), Positives = 103/204 (50%), Gaps = 6/204 (2%)

Query: 15  LLNGDIRVTNRLLCAIESCKVIAADGGICHASQLKVVPELWIGDFDSVDRTLLQQWSS-- 72
           L  G   +   L    E   VIAADGG  H  +L + P+L +GDFDS+D   L  +    
Sbjct: 1   LAGGGPDLELPLRLLKEHDLVIAADGGANHLLKLGLTPDLIVGDFDSIDEEELDFYKKAG 60

Query: 73  IKRIFYPNDKDMADGEIAVHKALQSGARNIILVGSISGQRFDYALQHITLATSLKKKNIN 132
           +K I +P +KD  D E+A+  AL+ GA  I ++G+  G R D+ L ++ L     K+ I 
Sbjct: 61  VKIIVFPPEKDTTDLELALKYALERGADEITILGATGG-RLDHTLANLNLLLEYAKRGIK 119

Query: 133 VTLTSGIEEVFILVPGKHSFDLPEN-SVFSIVCL-EDIENITITGAKYTLSHHSLSLGSS 190
           V L      + +L+PGK+        +  S++    D   +T  G KY L++  L  G S
Sbjct: 120 VRLIDEQNVIRLLLPGKYQIFKEPKGTYISLLPFGGDAHGLTTKGLKYPLNNAHLKFGGS 179

Query: 191 RAVSNVVTKN-LTIMLDQGLAILI 213
           R +SN    N  T+ ++ G+ ++I
Sbjct: 180 RGISNEFIGNKATVSVESGILLVI 203


>gnl|CDD|180399 PRK06101, PRK06101, short chain dehydrogenase; Provisional.
          Length = 240

 Score = 33.3 bits (76), Expect = 0.057
 Identities = 40/136 (29%), Positives = 58/136 (42%), Gaps = 40/136 (29%)

Query: 46  SQLKVVPELWI---GDFD-----SVDRTLLQQWSSIKRIFYPNDKDMADGEIAVHKALQS 97
           SQL  +PELWI   GD +      VD TL+       R+F  N   +A+    +   L  
Sbjct: 66  SQLPFIPELWIFNAGDCEYMDDGKVDATLMA------RVFNVNVLGVANCIEGIQPHLSC 119

Query: 98  GARNIILVGSISGQRFDYALQHI---------------TLATSLKKKNINV-TLTSGIEE 141
           G R +++VGSI+ +    AL                  TL   L+ K I V T+  G   
Sbjct: 120 GHR-VVIVGSIASE---LALPRAEAYGASKAAVAYFARTLQLDLRPKGIEVVTVFPG--- 172

Query: 142 VFILVP--GKHSFDLP 155
            F+  P   K++F +P
Sbjct: 173 -FVATPLTDKNTFAMP 187


>gnl|CDD|178316 PLN02714, PLN02714, thiamin pyrophosphokinase.
          Length = 229

 Score = 32.3 bits (74), Expect = 0.11
 Identities = 36/168 (21%), Positives = 71/168 (42%), Gaps = 30/168 (17%)

Query: 51  VPELWIGDFDSVDRTLLQQWSSI--KRIFYPNDKDMADGEIAVHKAL----------QSG 98
            P++  GD DS+   +L  +S++  K +   +D+D  D    +HK +             
Sbjct: 54  KPDVIKGDMDSIRPEVLDFYSNLGTKIVDESHDQDTTD----LHKCIAYIRDSTPDLDKS 109

Query: 99  ARNIILVGSISGQRFDYALQHITLATSLKKKNINVTLTSGIEEVFILVPGKH-------- 150
              I+++G++ G RFD+   +I      +  ++ + L S  + +  L+P  H        
Sbjct: 110 NLCILVLGALGG-RFDHEAGNIN--VLYRFPDLRIVLLSD-DCLIRLLPATHRHEIHIDS 165

Query: 151 SFDLPENSVFSIVCLEDIENITITGAKYTLSHHSLSLGSSRAVSNVVT 198
           S + P   +  I       + T TG ++ L +  +  G   + SN+V 
Sbjct: 166 SVEGPHCGLIPIGG--PSASTTTTGLQWNLDNTEMRFGGLISTSNIVK 211


>gnl|CDD|184854 PRK14852, PRK14852, hypothetical protein; Provisional.
          Length = 989

 Score = 29.7 bits (66), Expect = 0.65
 Identities = 15/57 (26%), Positives = 31/57 (54%), Gaps = 3/57 (5%)

Query: 94  ALQSGARNIILVGSISGQRFDYALQHITLATSLKKKNINVTLTSGIEEVFILVPGKH 150
           AL++  RN++ VG+++ Q   Y+ +   L   L K     ++ S ++++ + V  KH
Sbjct: 113 ALRAQGRNVVEVGALATQ---YSRRWTNLMVFLAKAMFQYSMMSEVDDILVTVNPKH 166


>gnl|CDD|169194 PRK08045, PRK08045, cystathionine gamma-synthase; Provisional.
          Length = 386

 Score = 29.1 bits (65), Expect = 0.85
 Identities = 19/65 (29%), Positives = 30/65 (46%), Gaps = 8/65 (12%)

Query: 67  LQQWSSIKRIFYPNDKDMADGEIAVHKALQSGARNIILVGSISG-----QRFDYALQHIT 121
           LQ    +K++++P+  +    EIA  +    GA   +L   + G     +RF   L   T
Sbjct: 266 LQTQPLVKKLYHPSLPENQGHEIAARQQKGFGA---MLSFELDGDEQTLRRFLGGLSLFT 322

Query: 122 LATSL 126
           LA SL
Sbjct: 323 LAESL 327


>gnl|CDD|182640 PRK10676, PRK10676, DNA-binding transcriptional regulator ModE;
           Provisional.
          Length = 263

 Score = 28.1 bits (63), Expect = 1.9
 Identities = 16/55 (29%), Positives = 26/55 (47%), Gaps = 1/55 (1%)

Query: 95  LQSGARNIILVGSISGQRFDYALQHITLATSLKKKNINVTLTSGIEEVFILVPGK 149
           LQ+ ARN    G+I+ +      QH+ +  +  K  + V +T+   E   L  GK
Sbjct: 122 LQTSARNQ-WFGTITARDHQQVQQHVDVLLADGKTRLKVAITAQSAERLGLDEGK 175


>gnl|CDD|185440 PTZ00092, PTZ00092, aconitate hydratase-like protein; Provisional.
          Length = 898

 Score = 28.1 bits (63), Expect = 2.0
 Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 8/62 (12%)

Query: 148 GKHSFDLPENSVFSIVCLEDIENITITGAKYTLSHHSLSLGSSRAVSNVVTKNLTIMLDQ 207
           G   F +PE         E     T  G +YTL+H S+ + +  + +N  T N ++ML  
Sbjct: 405 GFKGFGIPEEKH------EKKVKFTYKGKEYTLTHGSVVIAAITSCTN--TSNPSVMLAA 456

Query: 208 GL 209
           GL
Sbjct: 457 GL 458


>gnl|CDD|185541 PTZ00292, PTZ00292, ribokinase; Provisional.
          Length = 326

 Score = 27.0 bits (60), Expect = 4.1
 Identities = 18/74 (24%), Positives = 26/74 (35%), Gaps = 15/74 (20%)

Query: 136 TSGIEEVFILVPGKHSFDLPENSVF----SIVCLEDIENITITGAKYT-------LSHHS 184
             G   VF   P     ++     F    S+ C+ ++E   ITG + T        S   
Sbjct: 171 ERGCYTVFNPAPAPKLAEVEIIKPFLKYVSLFCVNEVEAALITGMEVTDTESAFKASKEL 230

Query: 185 LSLGSSRAVSNVVT 198
             LG    V NV+ 
Sbjct: 231 QQLG----VENVII 240


>gnl|CDD|178585 PLN03008, PLN03008, Phospholipase D delta.
          Length = 868

 Score = 27.0 bits (59), Expect = 4.4
 Identities = 13/27 (48%), Positives = 18/27 (66%), Gaps = 1/27 (3%)

Query: 79  PNDKDMADGEIAVHKALQSGARNIILV 105
           P DKDM  GE+  +K+ Q G R ++LV
Sbjct: 275 PRDKDMTLGELLKYKS-QEGVRVLLLV 300


>gnl|CDD|180765 PRK06939, PRK06939, 2-amino-3-ketobutyrate coenzyme A ligase;
           Provisional.
          Length = 397

 Score = 26.7 bits (60), Expect = 5.0
 Identities = 13/32 (40%), Positives = 21/32 (65%), Gaps = 1/32 (3%)

Query: 74  KRIFYPNDKDMADGEIAVHKALQSGARNIILV 105
           KR  Y N+ DMAD E  + +A ++GAR+ ++ 
Sbjct: 149 KRYRYANN-DMADLEAQLKEAKEAGARHKLIA 179


>gnl|CDD|162396 TIGR01510, coaD_prev_kdtB, pantetheine-phosphate
           adenylyltransferase, bacterial.  This model describes
           pantetheine-phosphate adenylyltransferase, the
           penultimate enzyme of coenzyme A (CoA) biosynthesis in
           bacteria. It does not show any strong homology to
           eukaryotic enzymes of coenzyme A biosynthesis. This
           protein was previously designated KdtB and postulated
           (because of cytidyltransferase homology and proximity to
           kdtA) to be an enzyme of LPS biosynthesis, a
           cytidyltransferase for 3-deoxy-D-manno-2-octulosonic
           acid. However, no activity toward that compound was
           found with either CTP or ATP. The phylogenetic
           distribution of this enzyme is more consistent with
           coenzyme A biosynthesis than with LPS biosynthesis.
          Length = 155

 Score = 26.5 bits (59), Expect = 5.2
 Identities = 24/113 (21%), Positives = 45/113 (39%), Gaps = 20/113 (17%)

Query: 48  LKVVPELWIGDFDSVDRTLLQQWSSIKRI--------FYPNDKDMADGEIAVHKALQSGA 99
             +  E+ +    +  +  L  +S  +R+          PN +      + V  A + GA
Sbjct: 23  AALFDEVIVAVAKNPSKKPL--FSLEERVELIKDATKHLPNVRVDVFDGLLVDYAKELGA 80

Query: 100 RNIILVGSISGQRFDYALQHITLATSLKKKNINVTLTSGIEEVFILVPGKHSF 152
              I+ G  +   F+Y LQ + L        +N  L   IE VF++   +++F
Sbjct: 81  -TFIVRGLRAATDFEYELQ-MAL--------MNKHLAPEIETVFLMASPEYAF 123


>gnl|CDD|178911 PRK00168, coaD, phosphopantetheine adenylyltransferase;
           Provisional.
          Length = 159

 Score = 26.6 bits (60), Expect = 6.0
 Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 10/62 (16%)

Query: 91  VHKALQSGARNIILVGSISGQRFDYALQHITLATSLKKKNINVTLTSGIEEVFILVPGKH 150
           V  A + GA  +I+ G  +   F+Y  Q   +A       +N  L   IE VF++   ++
Sbjct: 74  VDFAREVGA-TVIVRGLRAVSDFEYEFQ---MA------GMNRKLAPEIETVFLMPSPEY 123

Query: 151 SF 152
           SF
Sbjct: 124 SF 125


>gnl|CDD|185270 PRK15372, PRK15372, pathogenicity island 2 effector protein SseI;
           Provisional.
          Length = 292

 Score = 26.2 bits (57), Expect = 7.3
 Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 2/45 (4%)

Query: 163 VCLEDIENITITGAKYTLSHHSLSLGSSRAVSNV-VTKNLTIMLD 206
           V L+D+ N T+    Y+ +HH L++ +   V    +T NLT  +D
Sbjct: 80  VTLDDVGNYTVNCQGYSETHH-LTMATEPGVERTDITYNLTSDID 123


>gnl|CDD|180744 PRK06914, PRK06914, short chain dehydrogenase; Provisional.
          Length = 280

 Score = 26.1 bits (58), Expect = 7.5
 Identities = 11/31 (35%), Positives = 17/31 (54%), Gaps = 7/31 (22%)

Query: 87  GEIAVHKAL------QSGARNIILVGSISGQ 111
           G I+V +A+      Q   + II + SISG+
Sbjct: 115 GAISVTQAVLPYMRKQKSGK-IINISSISGR 144


  Database: CddB
    Posted date:  Feb 4, 2011  9:54 PM
  Number of letters in database: 5,994,473
  Number of sequences in database:  21,608
  
Lambda     K      H
   0.322    0.137    0.393 

Gapped
Lambda     K      H
   0.267   0.0706    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,545,478
Number of extensions: 218618
Number of successful extensions: 355
Number of sequences better than 10.0: 1
Number of HSP's gapped: 351
Number of HSP's successfully gapped: 26
Length of query: 222
Length of database: 5,994,473
Length adjustment: 90
Effective length of query: 132
Effective length of database: 4,049,753
Effective search space: 534567396
Effective search space used: 534567396
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.0 bits)