RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780123|ref|YP_003064536.1| hypothetical protein
CLIBASIA_00010 [Candidatus Liberibacter asiaticus str. psy62]
         (107 letters)



>gnl|CDD|163455 TIGR03743, SXT_TraD, conjugative coupling factor TraD, SXT/TOL
           subfamily.  Members of this protein family are the
           putative conjugative coupling factor, TraD (or TraG),
           rather distantly related to the well-characterized TraD
           of the F plasmid. Members are associated with
           conjugative-transposon-like mobile genetic elements of
           the class that includes SXT, an antibiotic resistance
           transfer element in some Vibrio cholerae strains.
          Length = 634

 Score = 32.2 bits (74), Expect = 0.027
 Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 13/52 (25%)

Query: 29  LQEALITQDVKAVEAV-------DPDLKKRVTVLAISYMKRCGDKGKSQFLS 73
           L E LITQD++  + V       D DLK+R+   A    KR G     +F  
Sbjct: 192 LAELLITQDIRRGDVVIVIDPKGDADLKRRMRAEA----KRAGR--PDRFYY 237


>gnl|CDD|163466 TIGR03754, conj_TOL_TraD, conjugative coupling factor TraD, TOL
           family.  Members of this protein are assigned by
           homology to the TraD family of conjugative coupling
           factor. This particular clade serves as a marker for an
           extended gene region that occurs occasionally on
           plasmids, including the toluene catabolism TOL plasmid.
           More commonly, the gene region is chromosomal, flanked
           by various markers of conjugative transfer and
           insertion.
          Length = 643

 Score = 29.3 bits (66), Expect = 0.22
 Identities = 17/43 (39%), Positives = 21/43 (48%), Gaps = 11/43 (25%)

Query: 29  LQEALITQDVKAVEAV-------DPDLKKRVTVLAISYMKRCG 64
           L E LITQD++  + V       D DL KR+   A    KR G
Sbjct: 196 LAELLITQDIRRGDVVIVFDPKGDADLLKRMYAEA----KRAG 234


>gnl|CDD|177413 PHA02584, 34, long tail fiber, proximal subunit; Provisional.
          Length = 1229

 Score = 28.2 bits (63), Expect = 0.56
 Identities = 11/40 (27%), Positives = 24/40 (60%)

Query: 19  LTFLSLITQGLQEALITQDVKAVEAVDPDLKKRVTVLAIS 58
           L+++   + G +  ++ Q+V  VE VD   + R+ V+A++
Sbjct: 412 LSYIEDDSTGRKYWVVAQNVPIVERVDSTDRARLGVIALA 451


>gnl|CDD|180755 PRK06926, PRK06926, flagellar motor protein MotP; Reviewed.
          Length = 271

 Score = 26.6 bits (59), Expect = 1.4
 Identities = 16/48 (33%), Positives = 30/48 (62%), Gaps = 2/48 (4%)

Query: 11  KAKDIPQLL-TFLSLITQGLQEALITQDVKAVEAVDPDLKKRVTVLAI 57
           +  D+ +L+ TF+SL  +  +E L++ + +  E  DP +KK + +LAI
Sbjct: 75  QEDDVEELVQTFVSLSEKARREGLLSLEAELEEVKDPFIKKGL-LLAI 121


>gnl|CDD|115779 pfam07148, MalM, Maltose operon periplasmic protein precursor
           (MalM).  This family consists of several maltose operon
           periplasmic protein precursor (MalM) sequences. The
           function of this family is unknown.
          Length = 279

 Score = 26.4 bits (58), Expect = 2.0
 Identities = 17/42 (40%), Positives = 23/42 (54%), Gaps = 8/42 (19%)

Query: 6   IEEAVKAKDIPQLLTFL----SLITQGLQEALITQDVKAVEA 43
           IE+AV   DIP+ L+ L    +L  +G QE      VKAV +
Sbjct: 240 IEQAVAKGDIPKALSLLDEAKALGIEGAQEVF----VKAVNS 277


>gnl|CDD|181963 PRK09573, PRK09573, (S)-2,3-di-O-geranylgeranylglyceryl phosphate
           synthase; Reviewed.
          Length = 279

 Score = 25.3 bits (56), Expect = 3.8
 Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 13/63 (20%)

Query: 15  IPQLLTFLSLITQGLQEALITQDVKAVEAVDPDLKKRVTVLAISYMKRCGDKGKSQFLSE 74
           I  L  F S            + VK +E ++ DLK+ V  L I    + G K KS ++++
Sbjct: 158 ILFLCAFFST--------WSREIVKDIEDIEGDLKENVITLPI----KYGIK-KSWYIAK 204

Query: 75  ILV 77
           IL+
Sbjct: 205 ILL 207


>gnl|CDD|178811 PRK00035, hemH, ferrochelatase; Reviewed.
          Length = 333

 Score = 25.1 bits (56), Expect = 4.4
 Identities = 7/35 (20%), Positives = 14/35 (40%), Gaps = 3/35 (8%)

Query: 55  LAISYMKRCGDKGKSQFLSEILVPALGTHKTFVDC 89
           + I Y +   + G  +F     +P L     F++ 
Sbjct: 283 IDIEYREIAEEAGGEEF---RRIPCLNDSPEFIEA 314


>gnl|CDD|117139 pfam08564, CDC37_C, Cdc37 C terminal domain.  Cdc37 is a protein
          required for the activity of numerous eukaryotic
          protein kinases. This domains corresponds to the C
          terminal domain whose function is unclear. It is found
          C terminal to the Hsp90 chaperone (Heat shocked protein
          90) binding domain pfam08565 and the N terminal kinase
          binding domain of Cdc37 pfam03234.
          Length = 87

 Score = 24.6 bits (54), Expect = 5.4
 Identities = 13/41 (31%), Positives = 19/41 (46%), Gaps = 3/41 (7%)

Query: 27 QGLQEALITQDVKAVEAVDPDLKKRVTVLAISYMKRCGDKG 67
            LQ+A  T+D+  V  V   +   V   A  +M+R  D G
Sbjct: 16 PELQKAFETKDLDEVNKVLAKMP--VEE-AEYHMERLIDSG 53


>gnl|CDD|185554 PTZ00323, PTZ00323, NAD+ synthase; Provisional.
          Length = 294

 Score = 24.7 bits (54), Expect = 5.5
 Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 5/43 (11%)

Query: 27 QGLQEALITQDVKAVEAVDPD--LKKRVTVLAISYMKRCGDKG 67
            LQ  L  ++V+   A +P   ++K+   L   YM+RCG KG
Sbjct: 9  PELQRVL--KEVRRKRAFNPAAWIEKKCAKLN-EYMRRCGLKG 48


>gnl|CDD|163185 TIGR03212, uraD_N-term-dom, putative urate catabolism protein.
          This model represents a protein that is predominantly
          found just upstream of the UraD protein (OHCU
          decarboxylase) and in a number of instances as a
          N-terminal fusion with it. UraD itself catalyzes the
          last step in the catabolism of urate to allantoate. The
          function of this protein is presently unknown. It shows
          homology with the pfam01522 polysaccharide deacetylase
          domain family.
          Length = 297

 Score = 24.7 bits (54), Expect = 6.4
 Identities = 7/13 (53%), Positives = 8/13 (61%)

Query: 64 GDKGKSQFLSEIL 76
          GD     FLSEI+
Sbjct: 42 GDAASEAFLSEIV 54


>gnl|CDD|185239 PRK15339, PRK15339, type III secretion system outer membrane pore
           InvG; Provisional.
          Length = 559

 Score = 24.3 bits (53), Expect = 7.8
 Identities = 12/22 (54%), Positives = 14/22 (63%)

Query: 3   VHFIEEAVKAKDIPQLLTFLSL 24
           VHFIE  VKA D+ +    LSL
Sbjct: 286 VHFIEMLVKALDVAKRHVELSL 307


>gnl|CDD|185540 PTZ00288, PTZ00288, glucokinase 1; Provisional.
          Length = 405

 Score = 24.1 bits (52), Expect = 9.3
 Identities = 12/32 (37%), Positives = 16/32 (50%), Gaps = 1/32 (3%)

Query: 10 VKAKDIPQLLTFLSLITQGLQEAL-ITQDVKA 40
          V   DI +LL F   + Q L++ L   Q V A
Sbjct: 62 VTKTDIRELLEFFDEVLQKLKKNLSFIQRVAA 93


  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
   0.319    0.135    0.368 

Gapped
Lambda     K      H
   0.267   0.0702    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,663,047
Number of extensions: 91945
Number of successful extensions: 194
Number of sequences better than 10.0: 1
Number of HSP's gapped: 194
Number of HSP's successfully gapped: 23
Length of query: 107
Length of database: 5,994,473
Length adjustment: 73
Effective length of query: 34
Effective length of database: 4,417,089
Effective search space: 150181026
Effective search space used: 150181026
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 (21.8 bits)
S2: 50 (23.1 bits)