RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

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



>gnl|CDD|162258 TIGR01221, rmlC, dTDP-4-dehydrorhamnose 3,5-epimerase.  This enzyme
           participates in the biosynthesis of dTDP-L-rhamnose,
           often as a precursor to LPS O-antigen.
          Length = 176

 Score =  211 bits (540), Expect = 8e-56
 Identities = 85/174 (48%), Positives = 118/174 (67%), Gaps = 4/174 (2%)

Query: 3   INPVRILKTRKFEDSRGWFSQTYSSKLLKELGLQDVFVQDNHSFSFDCGTIRGLHFQRPP 62
           I  V +++ R F D RG+F +TY+ +  +E G+   FVQDNHS S+  G +RGLH+QRP 
Sbjct: 7   IPDVLLIEPRVFGDERGFFMETYNDEAFQEQGIPVRFVQDNHSKSYK-GVLRGLHYQRP- 64

Query: 63  YAQAKLVRCIAGRIFDIAVDIRRNSPTYGCWVSLEISANNGLQIYIPTGFAHGFMTLEMN 122
           + Q KLVR + G +FD+AVD+RRNSPT+G WV + +SA N  Q++IP GFAHGF+ L   
Sbjct: 65  HPQGKLVRVLRGEVFDVAVDLRRNSPTFGKWVGVLLSAENKRQLWIPEGFAHGFVVLSDE 124

Query: 123 TEVIYKVTDFYSVEHDSGVAWQDKSIDITWPLLDTILPSVSEKDQNLPFLNQID 176
            E +YK TD+Y+ E++ G+ W D  I I WPL D   P +SEKD+N P L + +
Sbjct: 125 AEFLYKCTDYYAPEYERGIIWNDPDIGIDWPLEDD--PILSEKDRNGPPLAEAE 176


>gnl|CDD|115195 pfam06523, DUF1106, Protein of unknown function (DUF1106).  This
          family consists of several hypothetical bacterial
          proteins found in Escherichia coli and Citrobacter
          rodentium. The function of this family is unknown.
          Length = 91

 Score = 26.5 bits (58), Expect = 4.9
 Identities = 9/18 (50%), Positives = 13/18 (72%)

Query: 39 FVQDNHSFSFDCGTIRGL 56
          F ++ HSFS  CG +RG+
Sbjct: 19 FEEEEHSFSIICGRLRGI 36


>gnl|CDD|177887 PLN02244, PLN02244, tocopherol O-methyltransferase.
          Length = 340

 Score = 26.2 bits (58), Expect = 5.6
 Identities = 10/23 (43%), Positives = 14/23 (60%)

Query: 20  WFSQTYSSKLLKELGLQDVFVQD 42
           W S +   KL + LGLQD+  +D
Sbjct: 256 WCSTSDYVKLAESLGLQDIKTED 278


>gnl|CDD|180648 PRK06663, PRK06663, flagellar hook-associated protein FlgL;
           Validated.
          Length = 419

 Score = 25.8 bits (57), Expect = 6.8
 Identities = 10/38 (26%), Positives = 14/38 (36%), Gaps = 1/38 (2%)

Query: 49  DCGTIRGLHFQRPPYAQAKLVRCIAGRIFDIAVDIRRN 86
           D G I     + PPY  +         IFD  + +R  
Sbjct: 285 DLGLITN-ATKEPPYNYSNSAEVSGRSIFDSLIQLRDA 321


>gnl|CDD|183057 PRK11249, katE, hydroperoxidase II; Provisional.
          Length = 752

 Score = 25.8 bits (57), Expect = 7.1
 Identities = 8/18 (44%), Positives = 11/18 (61%)

Query: 32  ELGLQDVFVQDNHSFSFD 49
           ELG+Q +  +D   F FD
Sbjct: 332 ELGVQLIPEEDEFKFDFD 349


>gnl|CDD|165396 PHA03124, PHA03124, dUTPase; Provisional.
          Length = 418

 Score = 25.7 bits (56), Expect = 7.9
 Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 2/51 (3%)

Query: 6   VRILKTRKFEDSRGW--FSQTYSSKLLKELGLQDVFVQDNHSFSFDCGTIR 54
            RI+  +K    +    F    SS  LK L +    VQD+   SF+   IR
Sbjct: 309 TRIILPQKLACGKFRAAFILGRSSMNLKGLLVDPEHVQDDDWISFNITNIR 359


>gnl|CDD|179447 PRK02597, rpoC2, DNA-directed RNA polymerase subunit beta';
           Provisional.
          Length = 1331

 Score = 25.7 bits (57), Expect = 9.2
 Identities = 10/21 (47%), Positives = 13/21 (61%), Gaps = 5/21 (23%)

Query: 36  QDVFVQDNHSFSFDCGTIRGL 56
           QDV V++      DCGT RG+
Sbjct: 205 QDVIVRE-----EDCGTTRGI 220


  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
   0.323    0.139    0.434 

Gapped
Lambda     K      H
   0.267   0.0687    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,235,442
Number of extensions: 193331
Number of successful extensions: 271
Number of sequences better than 10.0: 1
Number of HSP's gapped: 268
Number of HSP's successfully gapped: 10
Length of query: 198
Length of database: 5,994,473
Length adjustment: 88
Effective length of query: 110
Effective length of database: 4,092,969
Effective search space: 450226590
Effective search space used: 450226590
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.0 bits)