RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 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|168344 PRK06008, flgL, flagellar hook-associated protein FlgL; Validated.
          Length = 348

 Score =  219 bits (560), Expect = 1e-57
 Identities = 104/360 (28%), Positives = 179/360 (49%), Gaps = 15/360 (4%)

Query: 1   MKTTGISTSSIFERMNILTKELNKDSVKLHEEMVTGQSSDYGLQLGARVTSILEWEQEKN 60
           MKT+ IST ++   + +   +L  +  K   E  TG+ +D GL LG++    +   +E +
Sbjct: 1   MKTSFISTLALQNALRLTIAKLQAELSKAQTEATTGRYADVGLSLGSKTARSVSLRREYD 60

Query: 61  HIAERLHSNSLVTKRLSTSQAHLSSMQKIVQDMVGPLVILLEGKTDNNKFPINAGMLRDS 120
            +A    SNSLVT+RL+ +Q  L  + +  Q  +  L   L   +        A   R +
Sbjct: 61  RLASLTDSNSLVTQRLTATQTALGQIIEAAQSFLNDL---LAANSSAQTAATVAQSARSA 117

Query: 121 YESFVTFANMTDEGQYLFSGINSSEKPLNGYFTKDSLAKKSFDQMLQGFL--EENSKSLL 178
             S  +  N +  G+YLF+GIN+  KPL  Y    S AK + D   Q +        +  
Sbjct: 118 LSSLTSTLNTSVNGEYLFAGINTDVKPLTDYGAPGSAAKTAVDTAFQTYFGFAPGDPA-- 175

Query: 179 AGQHLEVSSMNAQQMTDFIKQ-LEDKFSDDEYWANNWSNASDHNIKYRIKDTEGIDVSAN 237
                 VS++ A QM DF+       F  D  W+ NWS+ASD N+  RI  TE  + S +
Sbjct: 176 ------VSNITAAQMQDFLDGTFAPLF-SDANWSANWSSASDTNMTSRISPTETAETSTS 228

Query: 238 VNMRGIRDIMFVAVIGTEFLSKNLTDGARNVLTKKMLSTVQQGLSGIIEQRAVLGISEKN 297
            N  G R +    V+ +E     L+  A++ +T K ++   Q +SG+  +++ LG+++  
Sbjct: 229 ANAEGFRKLAMAYVMVSELGDIGLSSEAQDTVTDKAITYTGQAISGLTTEQSQLGLAQSR 288

Query: 298 INEERVFLQNKNNIIDTYISKSIGVEQHTAHAQLSTLINKIEMSYMITTKLQKLSILNYL 357
           + +    L  +  +++  I    GV+ + A  +++ L  ++E SY +T++LQ+LS++NYL
Sbjct: 289 VTKANTRLDAQIKLLNGQILDLEGVDPYEASTRVNALQTQLETSYSLTSQLQQLSLVNYL 348


>gnl|CDD|180872 PRK07192, flgL, flagellar hook-associated protein FlgL; Reviewed.
          Length = 305

 Score = 41.9 bits (99), Expect = 2e-04
 Identities = 41/157 (26%), Positives = 74/157 (47%), Gaps = 15/157 (9%)

Query: 6   ISTSSIFERMNILTKELNKDSVKLHEEMVTGQ-----SSDYGLQLGARVTSILEWEQEKN 60
           IST++++  M    ++L     KL ++M TG+     S D    + +    +LE  +E++
Sbjct: 3   ISTNTLYSTMLRSIQQLQAGLGKLQQQMSTGKRILTPSDD---PIAS--ARLLELSREQS 57

Query: 61  HIAERLHSNSLVTKRLSTSQAHLSSMQKIVQDMVGPLVILLEGKTDNNKFPINAGMLRDS 120
           + ++   + + ++  L+  + HLS +   +Q +   LV    G   +      A  LR  
Sbjct: 58  NNSQYADNIANLSNSLNNQEGHLSGVNDQLQSIRSLLVAAGNGSLSDEDRSAMATELRSM 117

Query: 121 YESFVTFANMTD-EGQYLFSGINSSEKPLNGYFTKDS 156
            +S +  AN  D EG YLFSG  S+ +P     T D+
Sbjct: 118 LDSLLGLANAKDSEGNYLFSGTASNTQP----ITFDA 150


>gnl|CDD|181581 PRK08913, flgL, flagellar hook-associated protein FlgL; Validated.
          Length = 301

 Score = 41.7 bits (98), Expect = 3e-04
 Identities = 26/135 (19%), Positives = 52/135 (38%), Gaps = 10/135 (7%)

Query: 225 RIKDTEGIDVSANVNMRGIRDIMFVA--VIGTEFLSKNLTDGARNVLTKKMLSTVQQGLS 282
           R+  T+G+      +      +M     V  +  LS +    A        L      + 
Sbjct: 175 RVSATQGVSYGVTADNSAFEQLMRALMLVANSSSLSSSTLSQA--------LDLASTAVD 226

Query: 283 GIIEQRAVLGISEKNINEERVFLQNKNNIIDTYISKSIGVEQHTAHAQLSTLINKIEMSY 342
            + + ++ LG +   +           +  +T +S   GV+     AQLST   ++  SY
Sbjct: 227 DLGDVQSRLGNAASRLTAASSRQTEYKSFAETLLSDLTGVDVAAVTAQLSTYQTQLTASY 286

Query: 343 MITTKLQKLSILNYL 357
              +K++ L++ +YL
Sbjct: 287 SAISKMKSLNLASYL 301


>gnl|CDD|181571 PRK08870, flgL, flagellar hook-associated protein FlgL; Reviewed.
          Length = 404

 Score = 37.2 bits (87), Expect = 0.006
 Identities = 13/41 (31%), Positives = 19/41 (46%), Gaps = 5/41 (12%)

Query: 117 LRDSYESFVTFANMTDE-GQYLFSGINSSEKPLNGYFTKDS 156
           L+   +  +  AN  D  G YLF+G  S  +P    F  D+
Sbjct: 114 LQGLRDQLLNLANSKDGSGNYLFAGTQSGTQP----FAFDA 150


>gnl|CDD|129812 TIGR00729, TIGR00729, ribonuclease H, mammalian HI/archaeal HII
           subfamily.  Archaeal members of this subfamily of RNase
           H are designated RNase HII and one has been shown to be
           active as a monomer. A member from Homo sapiens was
           characterized as RNase HI, large subunit.
          Length = 206

 Score = 33.6 bits (77), Expect = 0.075
 Identities = 18/72 (25%), Positives = 31/72 (43%), Gaps = 9/72 (12%)

Query: 258 SKNLTDGARNVLTKKMLSTVQQGLSGIIEQRAVLGISEKNINEERVFLQNKNNIIDTYIS 317
           SK LT G R  L  K        +   + +  VL I+ + I+ ER    N+ N I+ +  
Sbjct: 39  SKKLTPGRREELFSK--------IRNKLGRYEVLKITPEEIDRERNINLNE-NEIEKFSK 89

Query: 318 KSIGVEQHTAHA 329
            +I + +  +  
Sbjct: 90  AAIILIEKPSEV 101


>gnl|CDD|79176 PRK12718, flgL, flagellar hook-associated protein FlgL;
           Provisional.
          Length = 510

 Score = 31.7 bits (71), Expect = 0.32
 Identities = 39/149 (26%), Positives = 66/149 (44%), Gaps = 13/149 (8%)

Query: 6   ISTSSIFERMNILTKELNKDSV--KLHEEMVTGQS----SDYGLQLGARVTSILEWEQEK 59
           +ST+ I++  N L   LN+++   +L E++ +G+     +D  L     V          
Sbjct: 3   LSTALIYQ--NGLNGVLNQEAAMARLQEQLSSGRRVLTPADDPLAAALAVNVSQTSSMNS 60

Query: 60  NHIAERLHSNSLVTKRLSTSQAHLSSMQKIVQDMVGPLVILLEGKTDNNKFPINAGMLRD 119
           N+ A R  +   +  + +T    L S+ K +Q+M+  +V    G   +         L+ 
Sbjct: 61  NYDANRKQAEQALGAQTNT----LQSVVKNMQEMLKRVVEAGNGTMSDADRQALVIALKG 116

Query: 120 SYESFVTFANMTD-EGQYLFSGINSSEKP 147
           + E  V  AN TD  GQYLFSG     +P
Sbjct: 117 AREELVGLANATDGNGQYLFSGYKGFTQP 145


>gnl|CDD|181540 PRK08724, fliD, flagellar capping protein; Validated.
          Length = 673

 Score = 31.4 bits (71), Expect = 0.39
 Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 6/55 (10%)

Query: 81  AHLSSMQKIVQDMVGPLVILLEGKTDNNKFPINAGM------LRDSYESFVTFAN 129
           A LSS   +++D +  + + L+GKTD NK P   G+      +R+  E FV   N
Sbjct: 449 AQLSSNNNVIEDAIEGVDLTLKGKTDKNKPPAEIGVEYDRQSVRNDIEQFVAAYN 503


>gnl|CDD|173155 PRK14692, PRK14692, lagellar hook-associated protein FlgL;
           Provisional.
          Length = 749

 Score = 30.7 bits (69), Expect = 0.59
 Identities = 13/29 (44%), Positives = 17/29 (58%)

Query: 122 ESFVTFANMTDEGQYLFSGINSSEKPLNG 150
           ES V  AN +  GQYLF+G   + KP + 
Sbjct: 119 ESIVQLANTSVNGQYLFAGSQVANKPFDS 147


>gnl|CDD|181222 PRK08073, flgL, flagellar hook-associated protein FlgL; Validated.
          Length = 287

 Score = 29.9 bits (67), Expect = 1.1
 Identities = 23/105 (21%), Positives = 48/105 (45%), Gaps = 11/105 (10%)

Query: 51  SILEWEQEKNHIAERLHSNSLVTKRLSTSQAHLSSMQKIVQDMVGPLVILLEGKTDNNKF 110
           S+   EQ +  +A+   S +++ +  +T      S+ ++ Q ++  L     G  D  + 
Sbjct: 55  SLANIEQMQKDVAD---SKNVLNQTENTLSGMSKSLTRVDQLVLQAL----NGTNDEKEL 107

Query: 111 PINAGMLRDSYESFVTFANMTDEGQYLFSGINSSEKPLNGYFTKD 155
                 +    +  V  AN  ++G+Y+F G ++ +KP    FT+D
Sbjct: 108 KAIGAEIDQILKQVVYLANTKEQGRYVFGGDSAEKKP----FTED 148


>gnl|CDD|116500 pfam07888, CALCOCO1, Calcium binding and coiled-coil domain
           (CALCOCO1) like.  Proteins found in this family are
           similar to the coiled-coil transcriptional coactivator
           protein coexpressed by Mus musculus (CoCoA/CALCOCO1).
           This protein binds to a highly conserved N-terminal
           domain of p160 coactivators, such as GRIP1, and thus
           enhances transcriptional activation by a number of
           nuclear receptors. CALCOCO1 has a central coiled-coil
           region with three leucine zipper motifs, which is
           required for its interaction with GRIP1 and may regulate
           the autonomous transcriptional activation activity of
           the C-terminal region.
          Length = 546

 Score = 29.6 bits (66), Expect = 1.4
 Identities = 16/83 (19%), Positives = 34/83 (40%), Gaps = 1/83 (1%)

Query: 20  KELNKDSVKLHEEMVTGQSSDYGLQLGARVTSILEWEQEKNHIAERLHSNSLVTKRLSTS 79
           +E +K++    E M + + +    Q       ILE EQ+   + ++   N  V +     
Sbjct: 191 EEQHKEAQSSSESM-SAERNALLAQRAENQQRILELEQDIQTLTQKKQENDRVLEGTQDI 249

Query: 80  QAHLSSMQKIVQDMVGPLVILLE 102
           +A L  M+  ++  +  + I   
Sbjct: 250 EAELERMKGELKQRLKKMTIQRR 272


>gnl|CDD|181415 PRK08412, flgL, flagellar hook-associated protein FlgL; Validated.
          Length = 827

 Score = 27.5 bits (61), Expect = 5.8
 Identities = 11/32 (34%), Positives = 17/32 (53%)

Query: 122 ESFVTFANMTDEGQYLFSGINSSEKPLNGYFT 153
           E  +  AN +  G++LFSG     KP++   T
Sbjct: 119 EHMINLANTSIGGEFLFSGSKVDTKPIDSNGT 150


>gnl|CDD|183088 PRK11331, PRK11331, 5-methylcytosine-specific restriction enzyme
           subunit McrB; Provisional.
          Length = 459

 Score = 27.0 bits (59), Expect = 8.2
 Identities = 10/29 (34%), Positives = 14/29 (48%)

Query: 188 MNAQQMTDFIKQLEDKFSDDEYWANNWSN 216
           +    MTD    LE+ F DD Y    W++
Sbjct: 425 LKEIVMTDIAPLLEEYFFDDPYKQQIWAD 453


>gnl|CDD|162917 TIGR02550, flagell_flgL, flagellar hook-associated protein 3.  This
           protein family consists of flagellar hook-associated
           proteins designated FlgL (or HAP3) encoded in bacterial
           flagellar operons. A N-terminal region of about 150
           residues and a C-terminal region of about 85 residues
           are conserved. Members show considerable length
           heterogeneity between these two well-conserved terminal
           regions; members of the family vary between 287 to over
           500 residues in length. This model distinguishes FlgL
           from the flagellin gene product FliC.
          Length = 306

 Score = 26.5 bits (59), Expect = 9.6
 Identities = 10/34 (29%), Positives = 17/34 (50%), Gaps = 1/34 (2%)

Query: 117 LRDSYESFVTFANMTDE-GQYLFSGINSSEKPLN 149
           ++   +  V  AN  D  G+Y+FSG  +   P +
Sbjct: 113 IKQLLDQLVNLANTKDGNGRYIFSGTKTDTPPFS 146


  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
   0.314    0.129    0.348 

Gapped
Lambda     K      H
   0.267   0.0686    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 5,362,532
Number of extensions: 330503
Number of successful extensions: 482
Number of sequences better than 10.0: 1
Number of HSP's gapped: 475
Number of HSP's successfully gapped: 21
Length of query: 357
Length of database: 5,994,473
Length adjustment: 94
Effective length of query: 263
Effective length of database: 3,963,321
Effective search space: 1042353423
Effective search space used: 1042353423
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)