RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780373|ref|YP_003064786.1| flagellar basal
body-associated protein FliL [Candidatus Liberibacter asiaticus str.
psy62]
         (172 letters)



>gnl|CDD|146406 pfam03748, FliL, Flagellar basal body-associated protein FliL.
           This FliL protein controls the rotational direction of
           the flagella during chemotaxis. FliL is a cytoplasmic
           membrane protein associated with the basal body.
          Length = 145

 Score = 48.0 bits (115), Expect = 1e-06
 Identities = 22/100 (22%), Positives = 43/100 (43%), Gaps = 6/100 (6%)

Query: 78  KKLQIFSLQPIITNFDSSPKD-WLRLDIALICKDIPDKVFLET----LHQDIMAYIRTVS 132
                  L+P + N        +L++ IAL  +D      LE     +   I+  + + +
Sbjct: 45  APAAYVPLEPFVVNLADDGGTRYLKISIALEVRDPKAAEELEKHMPLIRDAILMLLSSKT 104

Query: 133 IKQITGAQGFRYFKEDIEERVKLRSQ-GFVSSVIFRTFII 171
            + ++  +G    KE++ ER+      G V  V+F +F+I
Sbjct: 105 AEDLSTPEGKEKLKEELLERINEVLLEGEVEDVLFTSFVI 144


>gnl|CDD|37688 KOG2477, KOG2477, KOG2477, Uncharacterized conserved protein
           [Function unknown].
          Length = 628

 Score = 27.7 bits (61), Expect = 1.8
 Identities = 12/42 (28%), Positives = 18/42 (42%), Gaps = 3/42 (7%)

Query: 113 DKVFLET---LHQDIMAYIRTVSIKQITGAQGFRYFKEDIEE 151
           D +F E    L +     I  + + Q  G+    YFK+ I E
Sbjct: 484 DVIFYENAPSLQRRPHTAIECIPVPQEIGSMAPAYFKKAISE 525


>gnl|CDD|147705 pfam05698, Trigger_C, Bacterial trigger factor protein (TF)
           C-terminus.  In the E. coli cytosol, a fraction of the
           newly synthesized proteins requires the activity of
           molecular chaperones for folding to the native state.
           The major chaperones implicated in this folding process
           are the ribosome-associated Trigger Factor (TF), and the
           DnaK and GroEL chaperones with their respective
           co-chaperones. Trigger Factor is an ATP-independent
           chaperone and displays chaperone and
           peptidyl-prolyl-cis-trans-isomerase (PPIase) activities
           in vitro. It is composed of at least three domains, an
           N-terminal domain which mediates association with the
           large ribosomal subunit, a central substrate binding and
           PPIase domain with homology to FKBP proteins, and a
           C-terminal domain of unknown function. The positioning
           of TF at the peptide exit channel, together with its
           ability to interact with nascent chains as short as 57
           residues renders TF a prime candidate for being the
           first chaperone that binds to the nascent polypeptide
           chains. This family represents the C-terminal region of
           the protein.
          Length = 162

 Score = 26.1 bits (58), Expect = 5.1
 Identities = 14/52 (26%), Positives = 24/52 (46%), Gaps = 3/52 (5%)

Query: 116 FLETLHQDIMAYIRTVSIKQITGAQGFRYFKEDIEERVKLRSQGFVSSVIFR 167
           FL+ L    +     +S+   +  +    FKE+ E+RVKL   G +   I +
Sbjct: 57  FLQQLQGQGLDLEEYLSLSGSSEEELREEFKEEAEKRVKL---GLILEEIAK 105


>gnl|CDD|36367 KOG1152, KOG1152, KOG1152, Signal transduction serine/threonine
           kinase with PAS/PAC sensor domain [Signal transduction
           mechanisms].
          Length = 772

 Score = 25.8 bits (56), Expect = 6.9
 Identities = 15/36 (41%), Positives = 21/36 (58%), Gaps = 2/36 (5%)

Query: 50  EEKYQKFILNNFYDNSVRSVHTGDTISLKKLQIFSL 85
           E++Y  F LN+  DN   +V +G   S  KL+I SL
Sbjct: 234 EQRY--FTLNSLSDNIPCAVCSGVLESESKLKIHSL 267


  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
   0.328    0.143    0.433 

Gapped
Lambda     K      H
   0.267   0.0724    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 2,167,666
Number of extensions: 111860
Number of successful extensions: 475
Number of sequences better than 10.0: 1
Number of HSP's gapped: 474
Number of HSP's successfully gapped: 28
Length of query: 172
Length of database: 6,263,737
Length adjustment: 87
Effective length of query: 85
Effective length of database: 4,383,754
Effective search space: 372619090
Effective search space used: 372619090
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 54 (24.6 bits)