RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddA 
           21,609 sequences; 6,263,737 total letters

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

Query= gi|254780197|ref|YP_003064610.1| triosephosphate isomerase
protein [Candidatus Liberibacter asiaticus str. psy62]
         (264 letters)



>gnl|CDD|143895 pfam00121, TIM, Triosephosphate isomerase. 
          Length = 243

 Score =  280 bits (718), Expect = 4e-76
 Identities = 98/246 (39%), Positives = 155/246 (63%), Gaps = 8/246 (3%)

Query: 7   PLVVGNWKMHGLRLSLERIQKIVEGIRRN---SCCIDVAICPPATLIYESSRLCKTSSVI 63
           P+++GNWKM+    +L    ++ + +      +  ++V + PP T +   S+  K S++ 
Sbjct: 1   PIIIGNWKMNK---TLAEALELAKALLAAALKNDGVEVVVAPPFTYLSPVSQALKGSNIK 57

Query: 64  IGAQDCHIAEYGPYTGDISANMLADCGANFVILGHSERRIGHREDSYVVQSKVKSACNAG 123
           +GAQ+    + G +TG++SA ML D G ++VI+GHSERR    E   +V  KVK+A   G
Sbjct: 58  VGAQNVSAEDSGAFTGEVSAEMLKDLGVSYVIIGHSERRQYFGETDEIVAKKVKAALKLG 117

Query: 124 LYPIVCIGETDEEYRSGRTFEVLQKQLDCSLPSEFKSSVP--VIAYEPIWAIGTGRVPAV 181
           L P++C+GET EE  +G+T EVL++QL   L    + ++   +IAYEP+WAIGTG+V   
Sbjct: 118 LTPVLCVGETLEEREAGKTLEVLKRQLKAILAGLDEEALKNLIIAYEPVWAIGTGKVATP 177

Query: 182 VDLEKIHSFVRRILLDRFPEEGQKMRILYGGSVDVANAEDFSLIENIDGLLVGGASLQHE 241
              +++H+F+R+ L +   E  +++RILYGGSV+  NA++     +IDG LVGGASL+ E
Sbjct: 178 EQAQEVHAFIRKYLAELSKEVAEEVRILYGGSVNPDNAKELLAQPDIDGFLVGGASLKAE 237

Query: 242 LFLKIV 247
            FL I+
Sbjct: 238 SFLAII 243


>gnl|CDD|73362 cd00311, TIM, Triosephosphate isomerase (TIM) is a glycolytic
           enzyme that catalyzes the interconversion of
           dihydroxyacetone phosphate and
           D-glyceraldehyde-3-phosphate. The reaction is very
           efficient and requires neither cofactors nor metal ions.
           TIM, usually homodimeric, but in some organisms
           tetrameric, is ubiqitous and conserved in function
           across eukaryotes, bacteria and archaea..
          Length = 242

 Score =  274 bits (703), Expect = 1e-74
 Identities = 103/242 (42%), Positives = 151/242 (62%)

Query: 7   PLVVGNWKMHGLRLSLERIQKIVEGIRRNSCCIDVAICPPATLIYESSRLCKTSSVIIGA 66
           PLV GNWKM+G       + K +  + ++   ++V + PP T +   +   + S + +GA
Sbjct: 1   PLVAGNWKMNGTLAEALELAKALNAVLKDESGVEVVVAPPFTYLAAVAEALEGSKIKVGA 60

Query: 67  QDCHIAEYGPYTGDISANMLADCGANFVILGHSERRIGHREDSYVVQSKVKSACNAGLYP 126
           Q+    + G +TG+ISA ML D GA +VI+GHSERR    E    V  KVK+A  AGL P
Sbjct: 61  QNVSPEDSGAFTGEISAEMLKDAGAKYVIIGHSERRQYFGETDEDVAKKVKAALEAGLTP 120

Query: 127 IVCIGETDEEYRSGRTFEVLQKQLDCSLPSEFKSSVPVIAYEPIWAIGTGRVPAVVDLEK 186
           I+C+GET EE  +G+T EV+  QL   L      +  VIAYEP+WAIGTG+  +    ++
Sbjct: 121 ILCVGETLEEREAGKTEEVVAAQLAAVLAGVEDLAPVVIAYEPVWAIGTGKTASPEQAQE 180

Query: 187 IHSFVRRILLDRFPEEGQKMRILYGGSVDVANAEDFSLIENIDGLLVGGASLQHELFLKI 246
           +H+F+R++L + + E  +K+RILYGGSV+  NA +     +IDG+LVGGASL+ E FL I
Sbjct: 181 VHAFIRKLLAELYGEVAEKVRILYGGSVNPENAAELLAQPDIDGVLVGGASLKAESFLDI 240

Query: 247 VE 248
           ++
Sbjct: 241 IK 242


>gnl|CDD|30498 COG0149, TpiA, Triosephosphate isomerase [Carbohydrate transport
           and metabolism].
          Length = 251

 Score =  255 bits (653), Expect = 8e-69
 Identities = 105/246 (42%), Positives = 158/246 (64%), Gaps = 2/246 (0%)

Query: 6   RPLVVGNWKMHG-LRLSLERIQKIVEGIRRNSCCIDVAICPPATLIYESSRLCKTSSVII 64
           +PLV GNWKM+     +   ++ +   +      ++VAI PP T +   + L +  ++ +
Sbjct: 3   KPLVAGNWKMNKTAAEAKALVEALAAELVAKEDDVEVAIAPPFTDLRRVAELVEIGNIKV 62

Query: 65  GAQDCHIAEYGPYTGDISANMLADCGANFVILGHSERRIGHREDSYVVQSKVKSACNAGL 124
           GAQ+    + G +TG+ISA ML D GA +V++GHSERR+   E   ++  KVK+A  AGL
Sbjct: 63  GAQNVDPEDSGAFTGEISAEMLKDLGAKYVLIGHSERRLYFGETDELIAKKVKAAKEAGL 122

Query: 125 YPIVCIGETDEEYRSGRTFEVLQKQLDCSLPSEFKSSVPVIAYEPIWAIGTGRVPAVVDL 184
            PI+C+GET EE  +G+T EVL++QL  +L +    +  VIAYEP+WAIGTG+  +  D 
Sbjct: 123 TPILCVGETLEEREAGKTLEVLKRQLAAALAALSPEANIVIAYEPVWAIGTGKSASPADA 182

Query: 185 EKIHSFVRRILLDRFPEEGQKMRILYGGSVDVANAEDFSLIENIDGLLVGGASLQHELFL 244
           E++H+F+R +L + F  E +K+RILYGGSV   NA + +   +IDG LVGGASL+ + FL
Sbjct: 183 EEVHAFIRAVLAELFGAE-EKVRILYGGSVKPGNAAELAAQPDIDGALVGGASLKADDFL 241

Query: 245 KIVEIV 250
            I+E +
Sbjct: 242 AILEAL 247


>gnl|CDD|36856 KOG1643, KOG1643, KOG1643, Triosephosphate isomerase [Carbohydrate
           transport and metabolism].
          Length = 247

 Score =  207 bits (527), Expect = 4e-54
 Identities = 95/244 (38%), Positives = 141/244 (57%), Gaps = 10/244 (4%)

Query: 8   LVVGNWKMHGLRLSLERIQKIVEGIRRNSCC--IDVAICPPATLIYESSRLCKTSSVIIG 65
            V GNWKM+G   S + I++I++ +        ++V I PPA  +  +    K   + + 
Sbjct: 6   FVGGNWKMNG---SKQSIKEIIKTLNAAKLPANVEVVIAPPAPYLDYAKSKLK-PDIGVA 61

Query: 66  AQDCHIAEYGPYTGDISANMLADCGANFVILGHSERRIGHREDSYVVQSKVKSACNAGLY 125
           AQ+C+  + G +TG+ISA ML D GA +VILGHSERR    E    +  K   A   GL 
Sbjct: 62  AQNCYKVKSGAFTGEISAEMLKDLGAEWVILGHSERRHVFGESDEFIADKTAHALAEGLK 121

Query: 126 PIVCIGETDEEYRSGRTFEVLQKQLDCSLPSEFKS-SVPVIAYEPIWAIGTGRVPAVVDL 184
            I CIGET EE  +G+T +V+ +QL  ++  + K  S  VIAYEP+WAIGTG+       
Sbjct: 122 VIACIGETLEEREAGKTLDVVFRQL-KAIADKVKDWSNIVIAYEPVWAIGTGKTATPEQA 180

Query: 185 EKIHSFVRRILLDRFPEE-GQKMRILYGGSVDVANAEDFSLIENIDGLLVGGASLQHELF 243
           +++H+ +R+ L     +      RI+YGGSV+  N ++ +   +IDG LVGGASL+ E F
Sbjct: 181 QEVHAEIRKWLKSNVSDAVASSTRIIYGGSVNGGNCKELAKKPDIDGFLVGGASLKPE-F 239

Query: 244 LKIV 247
           + I+
Sbjct: 240 VDII 243


>gnl|CDD|38205 KOG2994, KOG2994, KOG2994, Uracil DNA glycosylase [Replication,
           recombination and repair].
          Length = 297

 Score = 30.7 bits (69), Expect = 0.41
 Identities = 16/46 (34%), Positives = 20/46 (43%), Gaps = 11/46 (23%)

Query: 45  PPATLIYESSRLC---KTSSVIIGAQDCHIAEYGPYTGDISANMLA 87
           PP   I+  +RL    K   VIIG QD       PY     A+ L+
Sbjct: 113 PPPHQIFTWTRLTPFDKVKVVIIG-QD-------PYHNPNQAHGLS 150


>gnl|CDD|37441 KOG2230, KOG2230, KOG2230, Predicted beta-mannosidase [Carbohydrate
           transport and metabolism].
          Length = 867

 Score = 29.3 bits (65), Expect = 1.1
 Identities = 24/89 (26%), Positives = 43/89 (48%), Gaps = 4/89 (4%)

Query: 127 IVCIGETDEEYRSG-RTFEVLQKQLDCSLPSEFKSSVPVIAYEPIWAIGTGRVPAVVDLE 185
           +V +G   +E + G +T E++Q   D   P + ++    I  EP++  GT  +P  +  +
Sbjct: 296 VVSMGGQVKEKKIGFKTVELVQ---DPKKPEKGRNFYFKINDEPVFLKGTNWIPVSMFRD 352

Query: 186 KIHSFVRRILLDRFPEEGQKMRILYGGSV 214
           + +      LLD   E G  M  ++GG V
Sbjct: 353 RENIAKTEFLLDSVAEVGMNMLRVWGGGV 381


>gnl|CDD|38493 KOG3283, KOG3283, KOG3283, 40S ribosomal protein S8 [Translation,
           ribosomal structure and biogenesis].
          Length = 200

 Score = 29.2 bits (65), Expect = 1.2
 Identities = 30/122 (24%), Positives = 48/122 (39%), Gaps = 9/122 (7%)

Query: 11  GNWKMHGLRLSLERIQKIVEGIRRNSCCIDVAICPPATLIYESSRLCKTSSVIIGAQDCH 70
           GN K   LRL +       EG  R +  +DV   P    +  ++ L K++ V I A    
Sbjct: 51  GNKKYRALRLDMGNFSWGSEGTTRKTRILDVVYHPSNNELVRTNTLTKSAIVQIDAAPFR 110

Query: 71  I---AEYGPYTGDISANMLADCGANFVILGHSERRIGHREDSYVVQSKVKSACNAG-LYP 126
               + YG   G     +L    +      H +R+   R+ +  V S ++    AG LY 
Sbjct: 111 QWYESHYGLPLGRKKNKILNKKKSK-----HVQRKYAERQKNAKVDSSLEEQFAAGRLYA 165

Query: 127 IV 128
            +
Sbjct: 166 CI 167


>gnl|CDD|177097 CHL00206, ycf2, Ycf2; Provisional.
          Length = 2281

 Score = 28.3 bits (63), Expect = 2.1
 Identities = 20/67 (29%), Positives = 28/67 (41%), Gaps = 4/67 (5%)

Query: 139 SGRTFEVLQKQLDCSLPSEFKSSVPVIAYEPIWAIGTGRVPAVVDLEKI-HSFVRR---I 194
           SG+ FE+L K   C L S F+  +P+         G G      D+E + H F R    I
Sbjct: 252 SGQLFEILVKHWICYLMSAFREKIPIEVEGFFKQQGAGSTIQSNDIEHVSHLFSRNKWAI 311

Query: 195 LLDRFPE 201
            L    +
Sbjct: 312 SLQNCAQ 318


>gnl|CDD|35807 KOG0587, KOG0587, KOG0587, Traf2- and Nck-interacting kinase and
           related germinal center kinase (GCK) family protein
           kinases [Signal transduction mechanisms].
          Length = 953

 Score = 28.1 bits (62), Expect = 2.7
 Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 7/49 (14%)

Query: 192 RRILLDRFPEEGQKMRILYGGS-------VDVANAEDFSLIENIDGLLV 233
           + +L+D   EEGQ+++++YG         VD  +  D  L  +I   + 
Sbjct: 784 KPLLVDLTVEEGQRLKVIYGSCAGFHAVDVDSGSVYDIYLPTHIQCSIT 832


>gnl|CDD|39896 KOG4698, KOG4698, KOG4698, Uncharacterized conserved protein
           [Function unknown].
          Length = 475

 Score = 26.8 bits (59), Expect = 6.5
 Identities = 13/42 (30%), Positives = 18/42 (42%), Gaps = 2/42 (4%)

Query: 215 DVANAEDFSLIENIDGLLVG--GASLQHELFLKIVEIVERVY 254
           D         I N   +++G  GA L H LFL     V ++Y
Sbjct: 338 DRTEVAKQLRITNSSDVMIGVHGAGLTHLLFLPPWAGVIQIY 379


>gnl|CDD|107204 cd01561, CBS_like, CBS_like: This subgroup includes Cystathionine
           beta-synthase (CBS) and Cysteine synthase. CBS is a
           unique heme-containing enzyme that catalyzes a pyridoxal
           5'-phosphate (PLP)-dependent condensation of serine and
           homocysteine to give cystathionine. Deficiency of CBS
           leads to homocystinuria, an inherited disease of sulfur
           metabolism characterized by increased levels of the
           toxic metabolite homocysteine. Cysteine synthase on the
           other hand catalyzes the last step of cysteine
           biosynthesis.  This subgroup also includes an
           O-Phosphoserine sulfhydrylase found in hyperthermophilic
           archaea which produces L-cysteine from sulfide and the
           more thermostable O-phospho-L-serine..
          Length = 291

 Score = 26.7 bits (60), Expect = 6.8
 Identities = 19/69 (27%), Positives = 26/69 (37%), Gaps = 28/69 (40%)

Query: 173 IGTGRVPAVVDLEKIHSFVRRILLDRFPEEGQKMRILYGGSVDVANAEDFS----LIENI 228
           IG G +P  +D   I   VR                       V++ E F+    L    
Sbjct: 214 IGAGFIPENLDRSLIDEVVR-----------------------VSDEEAFAMARRLARE- 249

Query: 229 DGLLVGGAS 237
           +GLLVGG+S
Sbjct: 250 EGLLVGGSS 258


>gnl|CDD|176463 cd01359, Argininosuccinate_lyase, Argininosuccinate lyase
           (argininosuccinase, ASAL).  This group contains ASAL and
           related proteins. It is a member of the Lyase class I
           family. Members of this family for the most part
           catalyze similar beta-elimination reactions in which a
           C-N or C-O bond is cleaved with the release of fumarate
           as one of the products. These proteins are active as
           tetramers. The four active sites of the homotetrameric
           enzyme are each formed by residues from three different
           subunits. ASAL is a cytosolic enzyme which catalyzes the
           reversible breakdown of argininosuccinate to arginine
           and fumarate during arginine biosynthesis. In ureotelic
           species ASAL also catalyzes a reaction involved in the
           production of urea. Included in this group are the major
           soluble avian eye lens proteins from duck, delta 1 and
           delta 2 crystallin. Of these two isoforms only delta 2
           has retained ASAL activity. These crystallins may have
           evolved by, gene recruitment of ASAL followed by gene
           duplication. In humans, mutations in ASAL result in the
           autosomal recessive disorder argininosuccinic aciduria.
          Length = 435

 Score = 26.7 bits (60), Expect = 7.3
 Identities = 10/37 (27%), Positives = 16/37 (43%)

Query: 172 AIGTGRVPAVVDLEKIHSFVRRILLDRFPEEGQKMRI 208
            I  G      + E IH  + R L++R  + G K+  
Sbjct: 47  EIEAGAFELDPEDEDIHMAIERRLIERIGDVGGKLHT 83


  Database: CddA
    Posted date:  Feb 4, 2011  9:38 PM
  Number of letters in database: 6,263,737
  Number of sequences in database:  21,609
  
Lambda     K      H
   0.322    0.140    0.417 

Gapped
Lambda     K      H
   0.267   0.0577    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,250,084
Number of extensions: 169993
Number of successful extensions: 332
Number of sequences better than 10.0: 1
Number of HSP's gapped: 325
Number of HSP's successfully gapped: 17
Length of query: 264
Length of database: 6,263,737
Length adjustment: 92
Effective length of query: 172
Effective length of database: 4,275,709
Effective search space: 735421948
Effective search space used: 735421948
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: 56 (25.7 bits)