RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780723|ref|YP_003065136.1| hypothetical protein
CLIBASIA_03050 [Candidatus Liberibacter asiaticus str. psy62]
         (137 letters)



>gnl|CDD|179682 PRK03947, PRK03947, prefoldin subunit alpha; Reviewed.
          Length = 140

 Score = 29.5 bits (67), Expect = 0.29
 Identities = 15/54 (27%), Positives = 23/54 (42%), Gaps = 16/54 (29%)

Query: 31  PGDSKSQDNAKVVRADRVI-----------PTANT-----KRRKELREAIQKIE 68
           P  + S   AKV   D+VI                     KR++EL +A++K+E
Sbjct: 61  PIGAGSFVKAKVKDKDKVIVSLGAGYSAEKDLDEAIEILDKRKEELEKALEKLE 114


>gnl|CDD|130875 TIGR01816, sdhA_forward, succinate dehydrogenase, flavoprotein
           subunit, E. coli/mitochondrial subgroup.  Succinate
           dehydrogenase and fumarate reductase are homologous
           enzymes reversible in principle but favored under
           different circumstances. This model represents a
           narrowly defined clade of the succinate dehydrogenase
           flavoprotein subunit as found in mitochondria, in
           Rickettsia, in E. coli and other Proteobacteria, and in
           a few other lineages. However, this model excludes all
           known fumarate reductases. It also excludes putative
           succinate dehydrogenases that appear to diverged before
           the split between E. coli succinate dehydrogenase and
           fumarate reductase.
          Length = 565

 Score = 29.3 bits (66), Expect = 0.31
 Identities = 14/48 (29%), Positives = 27/48 (56%), Gaps = 1/48 (2%)

Query: 37  QDNAKVVRADRVIPTANTKRRKELREAIQKIELNHKAKIGNTKSIDSL 84
           Q++A V R   V+     K    L+E  + +++N K+K+ NT  +++L
Sbjct: 441 QNHAGVFRTGEVLQKGVEKI-SALKERYKNVKINDKSKVWNTDLVEAL 487


>gnl|CDD|180382 PRK06069, sdhA, succinate dehydrogenase flavoprotein subunit;
           Reviewed.
          Length = 577

 Score = 28.1 bits (63), Expect = 0.75
 Identities = 14/46 (30%), Positives = 25/46 (54%), Gaps = 1/46 (2%)

Query: 39  NAKVVRADRVIPTANTKRRKELREAIQKIELNHKAKIGNTKSIDSL 84
           N  + R +  +  A  K+ K+LRE  + + +  K++I NT   D+L
Sbjct: 462 NFGIFRDESGLAEA-LKKIKKLRERYKNVRIEDKSRIYNTDLKDAL 506


>gnl|CDD|178089 PLN02470, PLN02470, acetolactate synthase.
          Length = 585

 Score = 27.8 bits (62), Expect = 0.98
 Identities = 11/19 (57%), Positives = 14/19 (73%)

Query: 49  IPTANTKRRKELREAIQKI 67
           IP A   R+ +LREAIQK+
Sbjct: 525 IPAARVTRKSDLREAIQKM 543


>gnl|CDD|178802 PRK00025, lpxB, lipid-A-disaccharide synthase; Reviewed.
          Length = 380

 Score = 27.4 bits (62), Expect = 1.4
 Identities = 8/19 (42%), Positives = 14/19 (73%)

Query: 48  VIPTANTKRRKELREAIQK 66
           V+P  N KRR+++ EA+ +
Sbjct: 224 VLPLVNPKRREQIEEALAE 242


>gnl|CDD|162174 TIGR01048, lysA, diaminopimelate decarboxylase.  This family
           consists of diaminopimelate decarboxylase, an enzyme
           which catalyzes the conversion of diaminopimelic acid
           into lysine during the last step of lysine biosynthesis.
          Length = 417

 Score = 27.3 bits (61), Expect = 1.6
 Identities = 10/43 (23%), Positives = 15/43 (34%), Gaps = 5/43 (11%)

Query: 43  VRADRVIPTANTKRRKELREAIQKIELNHKAKIGNTKSIDSLI 85
              ++++   N K R EL  A     L    +  N  S   L 
Sbjct: 92  FPPEKIVFNGNGKSRAELERA-----LELGIRCINVDSESELE 129


>gnl|CDD|151349 pfam10902, DUF2693, Protein of unknown function (DUF2693).  This
          viral family of proteins has no known function.
          Length = 83

 Score = 27.1 bits (60), Expect = 1.6
 Identities = 16/71 (22%), Positives = 34/71 (47%), Gaps = 15/71 (21%)

Query: 35 KSQDNAKVVRADR---VIPTANTKR----------RKELREAIQKIELNHKAKIGNTKSI 81
          K+    +V++A R   ++PT    +          RKE +E+++  ++  + K   +  +
Sbjct: 9  KADGTIRVMQATRDERLMPTEELGKELFEKATKPTRKESKESVRVYDV--ELKGWRSFRL 66

Query: 82 DSLISCSGLPI 92
          D LIS +G  +
Sbjct: 67 DKLISVNGTKV 77


>gnl|CDD|180193 PRK05675, sdhA, succinate dehydrogenase flavoprotein subunit;
           Reviewed.
          Length = 570

 Score = 27.1 bits (60), Expect = 1.6
 Identities = 10/30 (33%), Positives = 19/30 (63%)

Query: 55  KRRKELREAIQKIELNHKAKIGNTKSIDSL 84
            +  +LRE I  +++N K++  NT  I++L
Sbjct: 467 AQLADLRERIANVKINDKSQAFNTARIEAL 496


>gnl|CDD|130760 TIGR01699, XAPA, xanthosine phosphorylase.  (TIGR01698, TIGR01700).
          Length = 248

 Score = 26.9 bits (59), Expect = 1.8
 Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 1/37 (2%)

Query: 74  KIGNTKSIDSLISCSGLPISKQHYYIGSCVIGFICGV 110
           +I N  +I S     G P+S  H + G  V+G + GV
Sbjct: 16  QIENAVAI-SYEKLPGFPVSTVHGHAGELVLGHLQGV 51


>gnl|CDD|181879 PRK09464, pdhR, transcriptional regulator PdhR; Reviewed.
          Length = 254

 Score = 26.9 bits (60), Expect = 1.8
 Identities = 8/12 (66%), Positives = 10/12 (83%)

Query: 57 RKELREAIQKIE 68
          R  LREAIQ++E
Sbjct: 48 RPSLREAIQRLE 59


>gnl|CDD|183368 PRK11901, PRK11901, hypothetical protein; Reviewed.
          Length = 327

 Score = 26.6 bits (59), Expect = 2.1
 Identities = 14/42 (33%), Positives = 20/42 (47%), Gaps = 14/42 (33%)

Query: 90  LPISKQHYYIGSCVIGFICGVLSLTLSSSFFTFLCVSVSSAL 131
           L +S+QH  IG        G+L L L       L +++ SAL
Sbjct: 31  LAVSRQHMMIG-------IGILVLLL-------LIIAIGSAL 58


>gnl|CDD|129162 TIGR00052, TIGR00052, nudix-type nucleoside diphosphatase,
           YffH/AdpP family. 
          Length = 185

 Score = 26.7 bits (59), Expect = 2.1
 Identities = 10/41 (24%), Positives = 17/41 (41%), Gaps = 4/41 (9%)

Query: 60  LREAIQKIELNHKAKIGNTKSIDSLISCSGLPISKQHYYIG 100
            REAI++       ++ N + + S  S  G      H +I 
Sbjct: 97  RREAIEEAGY----QVKNLRKLLSFYSSPGGVTELIHLFIA 133


>gnl|CDD|179675 PRK03918, PRK03918, chromosome segregation protein; Provisional.
          Length = 880

 Score = 26.6 bits (59), Expect = 2.5
 Identities = 10/27 (37%), Positives = 14/27 (51%), Gaps = 4/27 (14%)

Query: 55  KRRKELREAIQKIELNHKAKIGNTKSI 81
           K ++E+ E I KI     A+IG  K  
Sbjct: 398 KAKEEIEEEISKI----TARIGELKKE 420


>gnl|CDD|180814 PRK07057, sdhA, succinate dehydrogenase flavoprotein subunit;
           Reviewed.
          Length = 591

 Score = 26.3 bits (58), Expect = 2.9
 Identities = 13/48 (27%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 37  QDNAKVVRADRVIPTANTKRRKELREAIQKIELNHKAKIGNTKSIDSL 84
           Q +A V R   ++     ++   L E ++ I L  K+K+ NT  +++L
Sbjct: 471 QKHAGVFRTQALL-DEGVEQILALAERVENIHLKDKSKVFNTARVEAL 517


>gnl|CDD|162542 TIGR01812, sdhA_frdA_Gneg, succinate dehydrogenase or fumarate
           reductase, flavoprotein
           subunitGram-negative/mitochondrial subgroup.  This model
           represents the succinate dehydrogenase flavoprotein
           subunit as found in Gram-negative bacteria,
           mitochondria, and some Archaea. Mitochondrial forms
           interact with ubiquinone and are designated EC 1.3.5.1,
           but can be degraded to 1.3.99.1. Some isozymes in E.
           coli and other species run primarily in the opposite
           direction and are designated fumarate reductase.
          Length = 566

 Score = 26.1 bits (58), Expect = 3.0
 Identities = 14/48 (29%), Positives = 28/48 (58%), Gaps = 1/48 (2%)

Query: 37  QDNAKVVRADRVIPTANTKRRKELREAIQKIELNHKAKIGNTKSIDSL 84
            DN  + R + ++  A  +  +ELRE  + + +N K+K+ NT  +++L
Sbjct: 448 DDNVGIFRTEELLKKAVDEI-EELRERYKNVRINDKSKVFNTDLLEAL 494


>gnl|CDD|151167 pfam10661, EssA, Firmicute eSAT-6 protein secretion system EssA. 
          The Wss (WXG100 protein secretion system) in S. aureus
          seems to be encoded by a locus of eight ORFs, called
          ess (eSAT-6 secretion system). This locus encodes,
          amongst several other proteins, EssA, a protein
          predicted to possess one transmembrane domain. Due to
          its predicted membrane location and its absolute
          requirement for WXG100 protein secretion, it has been
          speculated that EssA could form a secretion apparatus
          in conjunction with YukC and YukAB. Proteins homologous
          to EssA, YukC, EsaA and YukD were absent from
          mycobacteria.
          Length = 166

 Score = 26.0 bits (57), Expect = 3.1
 Identities = 12/31 (38%), Positives = 18/31 (58%), Gaps = 1/31 (3%)

Query: 33 DSKSQDNAKV-VRADRVIPTANTKRRKELRE 62
          DS  +D+ K+  + DR+  T   K  K+LRE
Sbjct: 27 DSYLEDDGKMQFKVDRLQKTDQEKNEKKLRE 57


>gnl|CDD|180180 PRK05643, PRK05643, DNA polymerase III subunit beta; Validated.
          Length = 367

 Score = 25.9 bits (58), Expect = 3.6
 Identities = 10/26 (38%), Positives = 15/26 (57%), Gaps = 4/26 (15%)

Query: 46  DRVIPTANTKR----RKELREAIQKI 67
            RVIP    K+    RKEL +A+++ 
Sbjct: 246 RRVIPKEFDKKLTVDRKELLQALERA 271


>gnl|CDD|140068 PTZ00033, PTZ00033, 60S ribosomal protein L24; Provisional.
          Length = 125

 Score = 25.7 bits (56), Expect = 4.3
 Identities = 12/37 (32%), Positives = 21/37 (56%)

Query: 40  AKVVRADRVIPTANTKRRKELREAIQKIELNHKAKIG 76
           A+ V+  R I  A+    +E+R  +QK++ + KAK  
Sbjct: 77  ARTVKVQRAIVGADLSYIQEVRAYVQKVDRSAKAKAV 113


>gnl|CDD|184838 PRK14828, PRK14828, undecaprenyl pyrophosphate synthase;
           Provisional.
          Length = 256

 Score = 25.5 bits (56), Expect = 4.7
 Identities = 13/44 (29%), Positives = 20/44 (45%), Gaps = 3/44 (6%)

Query: 57  RKELREAIQKIELNHKAKIGNTKSIDSLISCSGLPISKQHYYIG 100
           R+E+ +A++ +   HK K     SID L     +     H Y G
Sbjct: 155 RQEIVDAVRSLLTEHKDKGT---SIDELAESVTVDAISTHLYTG 195


>gnl|CDD|148567 pfam07019, Rab5ip, Rab5-interacting protein (Rab5ip).  This family
           consists of several Rab5-interacting protein (RIP5 or
           Rab5ip ) sequences. The ras-related GTPase rab5 is
           rate-limiting for homotypic early endosome fusion.
           Rab5ip represents a novel rab5 interacting protein that
           may function on endocytic vesicles as a receptor for
           rab5-GDP and participate in the activation of rab5.
          Length = 81

 Score = 25.2 bits (56), Expect = 5.7
 Identities = 9/35 (25%), Positives = 19/35 (54%)

Query: 99  IGSCVIGFICGVLSLTLSSSFFTFLCVSVSSALVF 133
           + S + G I G+L LT    F  +  +S+ ++ ++
Sbjct: 9   VISLLAGVIAGILGLTGFLGFIFYFLISLGTSYLY 43


>gnl|CDD|130460 TIGR01393, lepA, GTP-binding protein LepA.  LepA (GUF1 in
          Saccaromyces) is a GTP-binding membrane protein related
          to EF-G and EF-Tu. Two types of phylogenetic tree,
          rooted by other GTP-binding proteins, suggest that
          eukaryotic homologs (including GUF1 of yeast)
          originated within the bacterial LepA family. The
          function is unknown.
          Length = 595

 Score = 25.0 bits (55), Expect = 6.4
 Identities = 16/57 (28%), Positives = 24/57 (42%), Gaps = 16/57 (28%)

Query: 38 DNAKVVRADRVIPTANTKRRKELREAI----------------QKIELNHKAKIGNT 78
          D+ K   ADR++        +E+RE +                Q + LN+KAK G T
Sbjct: 13 DHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGET 69


>gnl|CDD|147922 pfam06024, DUF912, Nucleopolyhedrovirus protein of unknown
          function (DUF912).  This family consists of several
          Nucleopolyhedrovirus proteins of unknown function.
          Length = 101

 Score = 24.9 bits (55), Expect = 7.1
 Identities = 11/23 (47%), Positives = 14/23 (60%), Gaps = 1/23 (4%)

Query: 8  FLVGLIT-VSVFCFLYAIFYNVI 29
           L+GL+    V   LYAI+Y VI
Sbjct: 64 ILIGLLAFFCVLVLLYAIYYFVI 86


  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
   0.327    0.139    0.418 

Gapped
Lambda     K      H
   0.267   0.0659    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 2,081,322
Number of extensions: 114836
Number of successful extensions: 482
Number of sequences better than 10.0: 1
Number of HSP's gapped: 481
Number of HSP's successfully gapped: 39
Length of query: 137
Length of database: 5,994,473
Length adjustment: 84
Effective length of query: 53
Effective length of database: 4,179,401
Effective search space: 221508253
Effective search space used: 221508253
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: 52 (24.0 bits)