RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780703|ref|YP_003065116.1| putative phosphate transport
system protein [Candidatus Liberibacter asiaticus str. psy62]
         (229 letters)



>gnl|CDD|162721 TIGR02135, phoU_full, phosphate transport system regulatory protein
           PhoU.  This model describes PhoU, a regulatory protein
           of unknown mechanism for high-affinity phosphate ABC
           transporter systems. The protein consists of two copies
           of the domain described by Pfam model pfam01895.
           Deletion of PhoU activates constitutive expression of
           the phosphate ABC transporter and allows phosphate
           transport, but causes a growth defect and so likely has
           some second function.
          Length = 212

 Score =  207 bits (529), Expect = 2e-54
 Identities = 85/209 (40%), Positives = 129/209 (61%)

Query: 7   SAYDEELDFLSRRIVEMGIVSRKMVDSSVRAFIEGDTVLAHKVIDNDVVLDQLERDIGDK 66
             +DEEL  L   ++EMG +  + ++ +VRA  E D  LA KVI++D  ++ LE  I +K
Sbjct: 1   KRFDEELKELREELLEMGGLVEEQLEDAVRALTEKDRELARKVIEDDDQINALEVKIEEK 60

Query: 67  AIITIAKRQPMASDLREIVGSIKIAADLERIGDLAKNTAKRVLALQMFGVPRKLVWTIEP 126
            +  IA +QP+A DLR I+  IKI++DLERIGD A N AKR L L+      K +  +E 
Sbjct: 61  CLRLIALQQPVAKDLRLIISIIKISSDLERIGDYAVNIAKRALRLKEEDAKPKHLEELEK 120

Query: 127 LAELSLEQLSEILDVYGSRSTEKTQSICNRDGELDAMHTSLFRELLTYMMEDPRNITLCT 186
           + +L+L+ L + LD + ++  E  + +   D  +D ++  +FREL+TYM E+P NI    
Sbjct: 121 MGKLALKMLKDALDAFLNKDAELARQVAEMDERVDELYRQIFRELVTYMKENPENIEAAL 180

Query: 187 HLLFCSKNIERIGDHVTNIAETIHYMTTG 215
            +L  ++ +ERIGDH TNIAE + Y+ TG
Sbjct: 181 DVLLIARYLERIGDHATNIAERVIYIKTG 209


>gnl|CDD|182974 PRK11115, PRK11115, transcriptional regulator PhoU; Provisional.
          Length = 236

 Score =  136 bits (344), Expect = 5e-33
 Identities = 75/213 (35%), Positives = 122/213 (57%), Gaps = 3/213 (1%)

Query: 4   HILSAYDEELDFLSRRIVEMGIVSRKMVDSSVRAFIEGDTVLAHKVIDNDVVLDQLERDI 63
           HI   ++ EL+ +  +++ MG +  + +  ++ A    D  LA +VI+ D  ++ +E  I
Sbjct: 9   HISGQFNAELESIRTQVLTMGGLVEQQLSDAITAMHNQDAELAKRVIEGDHKVNMMEVAI 68

Query: 64  GDKAIITIAKRQPMASDLREIVGSIKIAADLERIGDLAKNTAKRVLALQMFGV-PRKLVW 122
            +  +  IAKRQP ASDLR ++  IK  ADLERIGD+A   A+   AL+ F    + L+ 
Sbjct: 69  DEACVRIIAKRQPTASDLRLVMAIIKTIADLERIGDVADKIAR--TALEKFSQQHQPLLV 126

Query: 123 TIEPLAELSLEQLSEILDVYGSRSTEKTQSICNRDGELDAMHTSLFRELLTYMMEDPRNI 182
           ++E L   +++ L ++LD +     ++   I   D ++D  +  + R+L+TYMMEDPR I
Sbjct: 127 SLESLGRHTIQMLHDVLDAFARMDLDEAVRIYREDKKVDQEYEGIVRQLMTYMMEDPRTI 186

Query: 183 TLCTHLLFCSKNIERIGDHVTNIAETIHYMTTG 215
                +L+C+++IERIGD   NI E I Y   G
Sbjct: 187 PSVLTVLWCARSIERIGDRCQNICEYIIYFVKG 219


>gnl|CDD|165706 PLN00138, PLN00138, large subunit ribosomal protein LP2;
           Provisional.
          Length = 113

 Score = 29.6 bits (66), Expect = 0.67
 Identities = 12/25 (48%), Positives = 17/25 (68%)

Query: 76  PMASDLREIVGSIKIAADLERIGDL 100
           P A DL++I+GS+   AD +RI  L
Sbjct: 18  PSAEDLKDILGSVGADADDDRIELL 42


>gnl|CDD|180528 PRK06321, PRK06321, replicative DNA helicase; Provisional.
          Length = 472

 Score = 28.3 bits (63), Expect = 1.8
 Identities = 18/39 (46%), Positives = 23/39 (58%), Gaps = 6/39 (15%)

Query: 56  LDQLERDIGDKAIITIAKRQPMASDLREIVGSIKIAADL 94
           L QL R + D+A       +PM SDLRE  GSI+  +DL
Sbjct: 385 LSQLSRKVEDRA-----NHRPMMSDLRE-SGSIEQDSDL 417


>gnl|CDD|184529 PRK14133, PRK14133, DNA polymerase IV; Provisional.
          Length = 347

 Score = 26.2 bits (58), Expect = 7.3
 Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 2/70 (2%)

Query: 121 VWTIEPLAELSLEQLSEILDVYGSRSTEKTQSICNRDGELDAMHTSLFRELLTYMMEDPR 180
           ++TIE L +LS E L E    +G    E+ + I  R+ E+     S+ +E  T + +D +
Sbjct: 194 IYTIEDLLKLSREFLIEYFGKFGVEIYERIRGIDYREVEVSRERKSIGKE--TTLKKDTK 251

Query: 181 NITLCTHLLF 190
           +       L 
Sbjct: 252 DKEELKKYLK 261


>gnl|CDD|130261 TIGR01193, bacteriocin_ABC, ABC-type bacteriocin transporter.  This
           model describes ABC-type bacteriocin transporter. The
           amino terminal domain (pfam03412) processes the
           N-terminal leader peptide from the bacteriocin while
           C-terminal domains resemble ABC transporter membrane
           protein and ATP-binding cassette domain. In general,
           bacteriocins are agents which are responsible for
           killing or inhibiting the closely related species or
           even different strains of the same species. Bacteriocins
           are usually encoded by bacterial plasmids. Bacteriocins
           are named after the species and hence in literature one
           encounters various names e.g., leucocin from Leuconostic
           geldium; pedicocin from Pedicoccus acidilactici; sakacin
           from Lactobacillus sake etc.
          Length = 708

 Score = 26.2 bits (58), Expect = 7.4
 Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 11/60 (18%)

Query: 30  MVDSSVRAFIEG----DTVLAHKVIDNDVVLDQLERDIGDKAIITIAKRQPMASDLREIV 85
           + DS V    E     DT+   K+++N +       ++ DK II +A R  +A    +I+
Sbjct: 627 LTDSKVLILDESTSNLDTITEKKIVNNLL-------NLQDKTIIFVAHRLSVAKQSDKII 679


>gnl|CDD|130686 TIGR01625, YidE_YbjL_dupl, AspT/YidE/YbjL antiporter duplication
           domain.  This model represents a domain that is
           duplicated the aspartate-alanine antiporter AspT, as
           well as HI0035 of Haemophilus influenzae, YidE and YbjL
           of E. coli, and a number of other known or putative
           transporters. Member proteins may have 0, 1, or 2 copies
           of TrkA potassium uptake domain pfam02080 between the
           duplications. The domain contains several apparent
           transmembrane regions and is proposed here to act in
           transport.
          Length = 154

 Score = 26.1 bits (58), Expect = 8.3
 Identities = 12/35 (34%), Positives = 16/35 (45%)

Query: 109 LALQMFGVPRKLVWTIEPLAELSLEQLSEILDVYG 143
           L L  FG    L W I   A L + +   +L +YG
Sbjct: 32  LLLGHFGATGPLTWYIPFSANLFIREFGLMLFLYG 66


>gnl|CDD|180984 PRK07454, PRK07454, short chain dehydrogenase; Provisional.
          Length = 241

 Score = 26.1 bits (58), Expect = 8.9
 Identities = 17/74 (22%), Positives = 31/74 (41%), Gaps = 11/74 (14%)

Query: 75  QPMASDLREIVGSIKIAA-DLERIGDLAKNTAKRVLALQMFGVPRKLV------WTIEPL 127
           + +A++LR         + DL     +A   A+    L+ FG P  L+      +T  PL
Sbjct: 44  EALAAELRSTGVKAAAYSIDLSNPEAIAPGIAE---LLEQFGCPDVLINNAGMAYT-GPL 99

Query: 128 AELSLEQLSEILDV 141
            E+ L     ++ +
Sbjct: 100 LEMPLSDWQWVIQL 113


>gnl|CDD|132536 TIGR03497, FliI_clade2, flagellar protein export ATPase FliI.
           Members of this protein family are the FliI protein of
           bacterial flagellum systems. This protein acts to drive
           protein export for flagellar biosynthesis. The most
           closely related family is the YscN family of bacterial
           type III secretion systems. This model represents one
           (of three) segment of the FliI family tree. These have
           been modeled separately in order to exclude the type III
           secretion ATPases more effectively.
          Length = 413

 Score = 25.7 bits (57), Expect = 9.4
 Identities = 23/82 (28%), Positives = 37/82 (45%), Gaps = 14/82 (17%)

Query: 35  VRAFIEGDTVL----AHK----VIDNDVVLDQLERDIGDKAIITIAKRQPMASDLREIVG 86
           VR  ++G  VL    A K     ID   VL  + R + +   I   + + +A  LRE++ 
Sbjct: 303 VRGILDGHIVLSRELAAKNHYPAID---VLASVSRVMNE---IVSEEHKELAGKLRELLA 356

Query: 87  SIKIAADLERIGDLAKNTAKRV 108
             K A DL  IG   + +  ++
Sbjct: 357 VYKEAEDLINIGAYKRGSNPKI 378


  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
   0.321    0.136    0.383 

Gapped
Lambda     K      H
   0.267   0.0729    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 3,729,825
Number of extensions: 238278
Number of successful extensions: 458
Number of sequences better than 10.0: 1
Number of HSP's gapped: 451
Number of HSP's successfully gapped: 22
Length of query: 229
Length of database: 5,994,473
Length adjustment: 90
Effective length of query: 139
Effective length of database: 4,049,753
Effective search space: 562915667
Effective search space used: 562915667
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: 55 (25.0 bits)