RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780837|ref|YP_003065250.1| putative restriction
endonuclease S subunit [Candidatus Liberibacter asiaticus str. psy62]
         (426 letters)



>gnl|CDD|170075 PRK09737, PRK09737, EcoKI restriction-modification system protein
           HsdS; Provisional.
          Length = 461

 Score = 49.5 bits (118), Expect = 2e-06
 Identities = 91/442 (20%), Positives = 170/442 (38%), Gaps = 67/442 (15%)

Query: 19  GAIPKHWKVVPIKRFTKLNTGRTSESGK--------DIIYIGLEDVESG-----TGKY-- 63
           G +P+ W    I     +  G     G         D+ +I   D+ +G     T  Y  
Sbjct: 4   GKLPEGWVTTHISEICSVIRGVKPPKGYATKSLTMGDLPFIRTTDITNGAVDLTTLPYCM 63

Query: 64  -LPKDGNSRQSDTSTVSIFAKGQILYGKLGPYLRKAIIADFDGICSTQFLVLQPKDVLPE 122
             P+D +  Q     + I + G I +  L        +       S    +         
Sbjct: 64  DAPEDVSKYQLQDRDIVISSAGSIGFSFLAQ----NPLPSNVVFASFAIRLKPVNYFSEY 119

Query: 123 LLQGWLLSIDVTQRIEAICEGATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRID 182
            L+ +L S D   ++  +  G  + + + + +  +  PIPP+AEQ     KIIAE  ++D
Sbjct: 120 FLKHFLESSDYRNQLSLMSAGNAVQNINAQSLSTLTFPIPPIAEQ-----KIIAE--KLD 172

Query: 183 TLITE------RIRFI-ELLKEKKQALVSYIVTKGLNPDVKMKDSGIEWVGLVPDHWEVK 235
           TL+ +      R+  I ++LK  +QA++   V+  L  + +  D         P  W V 
Sbjct: 173 TLLAQVDSTKARLEQIPQILKRFRQAVLGAAVSGKLTEEWRWPDL--------PSTWSVH 224

Query: 236 PFFALVTELNRKNTKLIESNILSLSYGNIIQKLETRNMGLKPESYETYQIVDPGEIVFRF 295
            +  LV    R      ++N    ++G+    L   N+       E  Q +   +I  R 
Sbjct: 225 KYSELVDS--RLGGMSSKAN----NFGSATPYLRNINVRWGSFDLEDLQDILISDIERRE 278

Query: 296 IDLQ-NDKRSLRSAQVMERG------------IITSAYM---AVKPHGIDSTYLAWLMRS 339
           + L+  D    R  + +E G            +I    +    VK   I   YL + ++S
Sbjct: 279 LKLKLGDVLFCRGNEPLEVGRCAIWKEPQDIPVIYQKALIRARVKDD-IIPEYLVYNLKS 337

Query: 340 YDLCKVFYA-MGSGLRQS-LKFEDVKRLPVLVPPIKEQFDITNVINVETARIDVLVEKIE 397
            D   +  + + +G  Q  +  + +   P+ VPP++EQ +I   +    A  D + +++ 
Sbjct: 338 PDSRNISLSQLFTGTTQKHITGKALANYPIRVPPLEEQAEIVRRVEQLFAYADTIEKQVN 397

Query: 398 QSIVLLKERRSSFIAAAVTGQI 419
            ++  +     S +A A  G++
Sbjct: 398 NALARVNNLTQSILAKAFRGEL 419


>gnl|CDD|183318 PRK11797, PRK11797, D-ribose pyranase; Provisional.
          Length = 139

 Score = 27.9 bits (63), Expect = 5.6
 Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 14/54 (25%)

Query: 144 ATMSHADWKGIGNIPMPIPPLAEQVLIREKIIAETVRIDTLITERI-RFIELLK 196
           A + H D   I +  +PIP                 RID  +T+ +  F+++L 
Sbjct: 16  ARLGHTDTLVICDAGLPIPN-------------GVERIDLALTKGVPSFLDVLD 56


>gnl|CDD|161890 TIGR00463, gltX_arch, glutamyl-tRNA synthetase, archaeal and
           eukaryotic family.  The glutamyl-tRNA synthetases of the
           eukaryotic cytosol and of the Archaea are more similar
           to glutaminyl-tRNA synthetases than to bacterial
           glutamyl-tRNA synthetases. This alignment models just
           the eukaryotic cytosolic and archaeal forms of the
           enzyme. In some eukaryotes, the glutamyl-tRNA synthetase
           is part of a longer, multifunctional aminoacyl-tRNA
           ligase. In many species, the charging of tRNA(gln)
           proceeds first through misacylation with Glu and then
           transamidation. For this reason, glutamyl-tRNA
           synthetases may act on both tRNA(gln) and tRNA(glu).
          Length = 560

 Score = 27.5 bits (61), Expect = 6.0
 Identities = 10/44 (22%), Positives = 14/44 (31%)

Query: 17  WIGAIPKHWKVVPIKRFTKLNTGRTSESGKDIIYIGLEDVESGT 60
           W      HW  + I     L+T    +      Y G +D    T
Sbjct: 311 WELPEFIHWGRLKINDVRTLSTSSKLKGIVRGDYSGWDDPRLPT 354


>gnl|CDD|131353 TIGR02300, FYDLN_acid, conserved hypothetical protein TIGR02300.
           Members of this family are bacterial proteins with a
           conserved motif [KR]FYDLN, sometimes flanked by a pair
           of CXXC motifs, followed by a long region of low
           complexity sequence in which roughly half the residues
           are Asp and Glu, including multiple runs of five or more
           acidic residues. The function of members of this family
           is unknown.
          Length = 129

 Score = 27.3 bits (60), Expect = 8.0
 Identities = 11/33 (33%), Positives = 14/33 (42%)

Query: 358 KFEDVKRLPVLVPPIKEQFDITNVINVETARID 390
           KF D+ R P + P   EQF     +     R D
Sbjct: 18  KFYDLNRRPAVSPYTGEQFPPEEALKSRRVRAD 50


>gnl|CDD|179321 PRK01688, PRK01688, histidinol-phosphate aminotransferase;
           Provisional.
          Length = 351

 Score = 27.2 bits (61), Expect = 8.3
 Identities = 12/41 (29%), Positives = 18/41 (43%)

Query: 157 IPMPIPPLAEQVLIREKIIAETVRIDTLITERIRFIELLKE 197
           +  P+  +A Q L  + I A   R+  +   R   I  LKE
Sbjct: 244 LSTPVADIAAQALSPQGIAAMRERVAEINANRQWLIAALKE 284


>gnl|CDD|180189 PRK05667, dnaG, DNA primase; Validated.
          Length = 580

 Score = 27.1 bits (61), Expect = 8.6
 Identities = 11/31 (35%), Positives = 16/31 (51%), Gaps = 9/31 (29%)

Query: 59  GTGKYLPKDGNSRQSDTSTVSIFAKGQILYG 89
              KYL    NS ++      +F KG++LYG
Sbjct: 221 DKPKYL----NSPETP-----LFHKGRVLYG 242


  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
   0.319    0.138    0.400 

Gapped
Lambda     K      H
   0.267   0.0598    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 7,097,170
Number of extensions: 468744
Number of successful extensions: 787
Number of sequences better than 10.0: 1
Number of HSP's gapped: 787
Number of HSP's successfully gapped: 20
Length of query: 426
Length of database: 5,994,473
Length adjustment: 96
Effective length of query: 330
Effective length of database: 3,920,105
Effective search space: 1293634650
Effective search space used: 1293634650
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 (21.8 bits)
S2: 58 (26.4 bits)