RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780764|ref|YP_003065177.1| hypothetical protein
CLIBASIA_03275 [Candidatus Liberibacter asiaticus str. psy62]
         (194 letters)



>gnl|CDD|115031 pfam06347, SH3_4, Bacterial SH3 domain.  This family consists of
           several hypothetical bacterial proteins of unknown
           function. These are composed of SH3-like domains.
          Length = 55

 Score = 60.0 bits (146), Expect = 4e-10
 Identities = 27/57 (47%), Positives = 32/57 (56%), Gaps = 2/57 (3%)

Query: 61  KASRANSRIGPGIMYTVVCTYLTKGLPVEVVKEYENWRQIRDFDGTIGWINKSLLSG 117
           K  R N R GP     V+  YL  G+PV VVK   NW ++R  DG  GWI +SLL G
Sbjct: 1   KKKRVNLRKGPSPDAKVI-AYLEPGVPVRVVKCNGNWCRVR-ADGATGWIYQSLLWG 55



 Score = 53.5 bits (129), Expect = 3e-08
 Identities = 18/51 (35%), Positives = 29/51 (56%)

Query: 136 INLYKKPDIQSIIVAKVEPGVLLTIRECSGEWCFGYNLDTEGWIKKQKIWG 186
           +NL K P   + ++A +EPGV + + +C+G WC        GWI +  +WG
Sbjct: 5   VNLRKGPSPDAKVIAYLEPGVPVRVVKCNGNWCRVRADGATGWIYQSLLWG 55


>gnl|CDD|182809 PRK10884, PRK10884, SH3 domain-containing protein; Provisional.
          Length = 206

 Score = 30.8 bits (70), Expect = 0.22
 Identities = 22/55 (40%), Positives = 25/55 (45%), Gaps = 3/55 (5%)

Query: 68  RIGPGIMYTVVCTYLTKGLPVEV--VKEYENWRQIRDFDGTIGWINKSLLSGKRS 120
           R GPG  Y +V T L  G  V +  V    N+ QIRD  G   WI    LS   S
Sbjct: 37  RSGPGDQYRIVGT-LNAGEEVTLLQVNANTNYAQIRDSKGRTAWIPLKQLSTTPS 90


>gnl|CDD|128583 smart00287, SH3b, Bacterial SH3 domain homologues. 
          Length = 63

 Score = 30.0 bits (68), Expect = 0.46
 Identities = 14/64 (21%), Positives = 28/64 (43%), Gaps = 2/64 (3%)

Query: 55  PRFVTIKASRANSRIGPGIMYTVVCTYLTKGLPVEVV-KEYENWRQIRDFDGTIGWINKS 113
                +     N R GPG    ++   L KG  V+V+  + ++W +I    G  G++   
Sbjct: 1   SETAVVTGDGLNVRSGPGTSSPII-GTLKKGDKVKVLGVDGQDWAKITYGSGQRGYVPGY 59

Query: 114 LLSG 117
           +++ 
Sbjct: 60  VVNT 63


>gnl|CDD|116824 pfam08239, SH3_3, Bacterial SH3 domain. 
          Length = 52

 Score = 28.7 bits (65), Expect = 1.0
 Identities = 10/45 (22%), Positives = 20/45 (44%), Gaps = 2/45 (4%)

Query: 136 INLYKKPDIQSIIVAKVEPGVLLTIRECSGEWC-FGYNLDTEGWI 179
           +N+   P   S I+ ++  G  +T+   +  W    YN    G++
Sbjct: 3   LNVRSGPGTSSKIIGQLPKGTKVTVLGETNGWYKIEYN-GKTGYV 46


>gnl|CDD|183487 PRK12382, PRK12382, putative transporter; Provisional.
          Length = 392

 Score = 28.5 bits (64), Expect = 1.3
 Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 1/33 (3%)

Query: 59 TIKASRANSRIGPGIMYTVVCTYLTKGLPVEVV 91
          T   S AN  +   I + V  TY+T GLP+ V+
Sbjct: 7  TETRSSANFSLFR-IAFAVFLTYMTVGLPLPVI 38


>gnl|CDD|162179 TIGR01057, topA_arch, DNA topoisomerase I, archaeal.  This model
           describes topoisomerase I from archaea. These enzymes
           are involved in the control of DNA topology. DNA
           topoisomerase I belongs to the type I topoisomerases,
           which are ATP-independent.
          Length = 618

 Score = 28.3 bits (63), Expect = 1.5
 Identities = 12/56 (21%), Positives = 18/56 (32%), Gaps = 6/56 (10%)

Query: 94  YENWRQIRDFDGTIGWINKSLLSGKRSAIVS------PWNRKTNNPIYINLYKKPD 143
            E  R+I  F     W+ K+ L        +       W+ +    I   L K P 
Sbjct: 201 VEREREINLFVPKPYWVIKATLEKGGGVFDARPEKWKIWSEEEAKSIKEELKKSPW 256


>gnl|CDD|129107 smart00874, B5, tRNA synthetase B5 domain.  This domain is found
          in phenylalanine-tRNA synthetase beta subunits.
          Length = 71

 Score = 27.5 bits (62), Expect = 2.6
 Identities = 11/45 (24%), Positives = 20/45 (44%), Gaps = 1/45 (2%)

Query: 55 PRFVTIKASRANSRIGPGIMYTVVCTYLTK-GLPVEVVKEYENWR 98
          PR +T++  R N  +G  +    +   L + G  VEV  + +   
Sbjct: 1  PRTITLRRERINRLLGLDLSAEEIEEILKRLGFEVEVSGDDDTLE 45


>gnl|CDD|169983 PRK09579, PRK09579, multidrug efflux protein; Reviewed.
          Length = 1017

 Score = 25.6 bits (56), Expect = 9.4
 Identities = 28/99 (28%), Positives = 37/99 (37%), Gaps = 29/99 (29%)

Query: 75  YTVVCTYLTKGLPVEVVKEYENWRQIRDFDGTIGWINKSLLSGKRSAIVSPWNRKTNNPI 134
           YT   T + K  P     EY +  QI  F+G    I   LL         PWN +    +
Sbjct: 576 YTDEFTPIFKSFP-----EYYSSFQINGFNGVQSGIGGFLL--------KPWNERERTQM 622

Query: 135 YINLYKKPDIQSIIVAKVEPGVLLTIRECSGEWCFGYNL 173
            +     P +Q    AK+E        E  G   FG+NL
Sbjct: 623 EL----LPLVQ----AKLE--------EIPGLQIFGFNL 645


>gnl|CDD|182846 PRK10929, PRK10929, putative mechanosensitive channel protein;
           Provisional.
          Length = 1109

 Score = 25.4 bits (56), Expect = 9.4
 Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 6/30 (20%)

Query: 100 IRDFDGTIGWINKSLLSGKRSAIVSPWNRK 129
           IRD  G++  IN       R+  +S W+RK
Sbjct: 944 IRDLTGSVTKIN------TRATTISDWDRK 967


  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    0.140    0.441 

Gapped
Lambda     K      H
   0.267   0.0738    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,198,080
Number of extensions: 193252
Number of successful extensions: 349
Number of sequences better than 10.0: 1
Number of HSP's gapped: 347
Number of HSP's successfully gapped: 22
Length of query: 194
Length of database: 5,994,473
Length adjustment: 88
Effective length of query: 106
Effective length of database: 4,092,969
Effective search space: 433854714
Effective search space used: 433854714
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: 54 (24.6 bits)