RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780523|ref|YP_003064936.1| flagellar hook-associated
protein FlgL [Candidatus Liberibacter asiaticus str. psy62]
         (357 letters)



>gnl|CDD|31535 COG1344, FlgL, Flagellin and related hook-associated proteins [Cell
           motility and secretion].
          Length = 360

 Score = 57.0 bits (137), Expect = 7e-09
 Identities = 61/360 (16%), Positives = 118/360 (32%), Gaps = 13/360 (3%)

Query: 6   ISTSSIFERMNILTKELNKDSVKLHEEMVTGQSSDYGLQLGARVTSILEWEQEKNHIAER 65
           I+T+           +   +  K  E + +G   +      A +   L    +   +++ 
Sbjct: 3   INTNMAALNALRNLNKNQSELAKSQERLSSGLRINSASDDAAGLAIALRLRSQIRGLSQA 62

Query: 66  LHSNSLVTKRLSTSQAHLSSMQKIVQDMVGPLVILLEGKTDNNKFPINAGMLRDSYESFV 125
             +      +L T++  LS + KI+Q +    V    G   +         +    +   
Sbjct: 63  KDNAQDGISKLQTAEGALSEISKILQRIKELAVQAANGTLSDADRAAIQKEIEQLLDELD 122

Query: 126 TFANMTD-EGQYLFSGINSSEKPLNGYFTKDSLAKKSFDQMLQGFLEENSKSLLAGQHLE 184
             AN T   G+YLF+G  + +KP +         K SF+    G         L   +  
Sbjct: 123 NIANTTSFNGEYLFAGSKT-DKPFDFQNAGGETIKGSFNSDSSGT----VSVGLDITNTG 177

Query: 185 VSSMNAQQMTDFIKQLEDKFSDDEYWANNWSNASDHNI----KYRIKDTEGIDVSANVNM 240
             S  +   T   + ++             + A+  +     K     T    + ANV  
Sbjct: 178 DLSFTSLGTTAKDEPIDAGDVTAGPTNLFGAGANAADGASLGKALDAATTNTQIGANVGQ 237

Query: 241 R---GIRDIMFVAVIGTEFLSKNLTDGARNVLTKKMLSTVQQGLSGIIEQRAVLGISEKN 297
                I D   +       L+   +  A     +  L T+   L  I   RA LG  +  
Sbjct: 238 TTTLNINDGNVMTASAAGALADPGSSVATADGAQAALGTIDSALDNITSARAELGAVQNR 297

Query: 298 INEERVFLQNKNNIIDTYISKSIGVEQHTAHAQLSTLINKIEMSYMITTKLQKLSILNYL 357
           +      L N+++ +    S+ + V+      +L+ L    + S     +  +LS+L   
Sbjct: 298 LESAINNLSNQSDNLTAAESRIVDVDMAEESTELTKLQILQQASLQALAQANQLSLLVLS 357


>gnl|CDD|144340 pfam00700, Flagellin_C, Bacterial flagellin C-terminal helical
           region.  Flagellins polymerize to form bacterial
           flagella. There is some similarity between this family
           and pfam00669, particularly the motif NRFXSXIXXL. It has
           been suggested that these two regions associate and this
           is shown to be correct as structurally this family forms
           an extended helix that interacts with pfam00700.
          Length = 84

 Score = 49.1 bits (118), Expect = 2e-06
 Identities = 19/84 (22%), Positives = 44/84 (52%)

Query: 274 LSTVQQGLSGIIEQRAVLGISEKNINEERVFLQNKNNIIDTYISKSIGVEQHTAHAQLST 333
           +  + + ++ +  QR+ LG  +  +      L+N+++ +   IS+   V+   A  +++ 
Sbjct: 1   IDILDEAITQLTSQRSDLGAVQNRLESANTNLKNQSDNLKAAISRIEDVDPAEASTRVTK 60

Query: 334 LINKIEMSYMITTKLQKLSILNYL 357
           L   ++ SY +T +  +LS+LN L
Sbjct: 61  LQILLQASYALTAQANQLSLLNLL 84


>gnl|CDD|144315 pfam00669, Flagellin_N, Bacterial flagellin N-terminal helical
           region.  Flagellins polymerize to form bacterial
           flagella. This family includes flagellins and hook
           associated protein 3. Structurally this family forms an
           extended helix that interacts with pfam00700.
          Length = 139

 Score = 43.1 bits (102), Expect = 1e-04
 Identities = 33/143 (23%), Positives = 57/143 (39%), Gaps = 9/143 (6%)

Query: 6   ISTSSIFERMNILTKELNKDSVKLHEEMVTGQSSDYGLQLGARVTSILEWEQEKNHIAER 65
           IST+++             +  K  EE+ TG   D  L LGA     +    +   +++ 
Sbjct: 1   ISTNALALAARRTLNRNQAELQKAQEELSTGLRIDSALDLGAGTAISVSLRSQIRGLSQA 60

Query: 66  LHSNSLVTKRLSTSQAHLSSMQKIVQDMVGPLVILLEGKTDNNKFPINAGMLRDSYESFV 125
           + +N+L   RL T+Q  LS +  I+Q +      L     +     I+    +   +   
Sbjct: 61  VRNNNLGISRLQTAQGALSEVTDILQRLRE----LAVQAANGGNSDIDRASAQAEIQQLT 116

Query: 126 TFANMTDE-----GQYLFSGINS 143
           +  N         G+YLFSG N+
Sbjct: 117 SELNNIANTTSFNGEYLFSGTNT 139


>gnl|CDD|30672 COG0324, MiaA, tRNA delta(2)-isopentenylpyrophosphate transferase
           [Translation, ribosomal structure and biogenesis].
          Length = 308

 Score = 29.1 bits (65), Expect = 2.1
 Identities = 15/52 (28%), Positives = 24/52 (46%), Gaps = 1/52 (1%)

Query: 159 KKSFDQML-QGFLEENSKSLLAGQHLEVSSMNAQQMTDFIKQLEDKFSDDEY 209
            +  D ML QG +EE       G HL++ +M A    + +  L+   S +E 
Sbjct: 208 NRRVDAMLEQGLIEEVKALYARGLHLDLPAMQAIGYKEILAYLDGGISLEEA 259


>gnl|CDD|73064 cd02658, Peptidase_C19B, A subfamily of Peptidase C19. Peptidase
           C19 contains ubiquitinyl hydrolases. They are
           intracellular peptidases that remove ubiquitin molecules
           from polyubiquinated peptides by cleavage of isopeptide
           bonds. They hydrolyze bonds involving the carboxyl group
           of the C-terminal Gly residue of ubiquitin. The purpose
           of the de-ubiquitination is thought to be editing of the
           ubiquitin conjugates, which could rescue them from
           degradation, as well as recycling of the ubiquitin. The
           ubiquitin/proteasome system is responsible for most
           protein turnover in the mammalian cell, and with over 50
           members, family C19 is one of the largest families of
           peptidases in the human genome..
          Length = 311

 Score = 28.7 bits (64), Expect = 2.4
 Identities = 17/63 (26%), Positives = 28/63 (44%)

Query: 148 LNGYFTKDSLAKKSFDQMLQGFLEENSKSLLAGQHLEVSSMNAQQMTDFIKQLEDKFSDD 207
           L+G ++K +  K   D    G      K+L+   H E S+M  Q   +F+  L DK   +
Sbjct: 58  LSGRYSKPASLKSENDPYQVGIKPSMFKALIGKGHPEFSTMRQQDALEFLLHLIDKLDRE 117

Query: 208 EYW 210
            + 
Sbjct: 118 SFK 120


>gnl|CDD|36641 KOG1428, KOG1428, KOG1428, Inhibitor of type V adenylyl
            cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1
            [Signal transduction mechanisms].
          Length = 3738

 Score = 28.2 bits (62), Expect = 3.3
 Identities = 23/101 (22%), Positives = 41/101 (40%), Gaps = 11/101 (10%)

Query: 142  NSSEKPLNGYFTKDSLAKKSFDQMLQGFLEENSKSLLAGQHLEVSSMNAQQMTDF----- 196
            N  ++ L    +  ++ +  +DQ       EN+ SL     ++VS   A    D      
Sbjct: 1435 NCEKETLASLTSFPNILRFLYDQTFMRNAYENTSSLAEAILVKVSRDLAIPTDDTLMGPV 1494

Query: 197  IKQLEDKF---SDDEYWANNWSNASDHNIKYRIKDTEGIDV 234
            + Q   +F   S    W  + S+     I +R+ D+EGI +
Sbjct: 1495 VHQTSSRFRRRSAQPTW--DMSDGCADAIAFRV-DSEGIKL 1532


>gnl|CDD|35088 COG5529, COG5529, Pyocin large subunit [General function prediction
           only].
          Length = 326

 Score = 28.2 bits (62), Expect = 3.3
 Identities = 11/37 (29%), Positives = 16/37 (43%)

Query: 201 EDKFSDDEYWANNWSNASDHNIKYRIKDTEGIDVSAN 237
             +F+D   WA N   A++  +  R     G   SAN
Sbjct: 225 LTEFADAPLWAKNDYWAAEGKVAQRHFWEHGAAFSAN 261


>gnl|CDD|31710 COG1521, COG1521, Putative transcriptional regulator, homolog of
           Bvg accessory factor [Transcription].
          Length = 251

 Score = 28.0 bits (62), Expect = 4.5
 Identities = 16/85 (18%), Positives = 28/85 (32%), Gaps = 2/85 (2%)

Query: 153 TKDSLAKKSFDQMLQGFLEENSKSLLAGQHLEVSSMNAQQMTDFIKQLEDKFSDDEYWAN 212
           T+D L +      L    + NS   + G  + +SS+           L++ F        
Sbjct: 30  TEDLLTEDELGLQLHNLFDGNSVRDIDG--IVISSVVPPLGIFLEAVLKEYFKVKPLVVI 87

Query: 213 NWSNASDHNIKYRIKDTEGIDVSAN 237
           +        + Y   +  G D  AN
Sbjct: 88  SPKQLLGIRVLYDNPEELGADRIAN 112


>gnl|CDD|111841 pfam02995, DUF229, Protein of unknown function (DUF229).  Members
           of this family are uncharacterized. They are 500-1200
           amino acids in length and share a long region
           conservation that probably corresponds to several
           domains. The Go annotation for the protein indicates
           that it is involved in nematode larval development and
           has a positive regulation on growth rate.
          Length = 498

 Score = 26.9 bits (60), Expect = 8.6
 Identities = 7/27 (25%), Positives = 16/27 (59%)

Query: 195 DFIKQLEDKFSDDEYWANNWSNASDHN 221
           D+++Q   ++ D  ++   WSN+  H+
Sbjct: 281 DYLRQFLPRYRDSPFFGFFWSNSLSHD 307


  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
   0.314    0.129    0.348 

Gapped
Lambda     K      H
   0.267   0.0713    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,793,354
Number of extensions: 188263
Number of successful extensions: 309
Number of sequences better than 10.0: 1
Number of HSP's gapped: 307
Number of HSP's successfully gapped: 13
Length of query: 357
Length of database: 6,263,737
Length adjustment: 95
Effective length of query: 262
Effective length of database: 4,210,882
Effective search space: 1103251084
Effective search space used: 1103251084
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 58 (26.2 bits)