RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781134|ref|YP_003065547.1| hypothetical protein
CLIBASIA_05180 [Candidatus Liberibacter asiaticus str. psy62]
         (320 letters)



>gnl|CDD|34376 COG4763, COG4763, Predicted membrane protein [Function unknown].
          Length = 388

 Score = 28.8 bits (64), Expect = 2.1
 Identities = 10/49 (20%), Positives = 17/49 (34%)

Query: 221 LQAYQRPYLKLFARANYDHSYPEFSKETISNNPMDNGIWDNSLWDEVKW 269
           +  +      LF R  Y    P        +  + N  +  +LW  V+W
Sbjct: 77  MPVFFFISGYLFRRRRYIDLVPYVLWGNCLDKRLWNIFFVLALWGVVQW 125


>gnl|CDD|37897 KOG2686, KOG2686, KOG2686, Choline kinase [Cell
           wall/membrane/envelope biogenesis].
          Length = 366

 Score = 28.0 bits (62), Expect = 3.3
 Identities = 21/117 (17%), Positives = 37/117 (31%), Gaps = 16/117 (13%)

Query: 178 TFWQGDISGSDNARPFIGIYLSPFHAIDPRLGFQRRACVAHLSLQAYQRPYLKLFARANY 237
           T    DI   + ++  I   L+ +H I+     + R+       + Y++           
Sbjct: 125 TLTLADIRDPEISK-RIAAKLAEYHGIEVPGPKEPRSL-----WERYKKWLKGAKKIKPT 178

Query: 238 DHSYPEFSKETISNNPMDNGIWDNSLWDEVKWTDNLFVTKKKLFQFCQNVVAYGNCL 294
           + SY     + +             L  E+          K    FC N + YGN L
Sbjct: 179 EVSY-SCGPDKLE---------IEDLLLELSLFRKWSELTKSPVVFCHNDLQYGNIL 225


>gnl|CDD|48044 cd03449, R_hydratase, (R)-hydratase [(R)-specific enoyl-CoA
           hydratase] catalyzes the hydration of trans-2-enoyl CoA
           to (R)-3-hydroxyacyl-CoA as part of the PHA
           (polyhydroxyalkanoate) biosynthetic pathway.
           (R)-hydratase contains a hot-dog fold similar to those
           of thioesterase II, and beta-hydroxydecanoyl-ACP
           dehydratase, MaoC dehydratase,
           Hydratase-Dehydrogenase-Epimerase protein (HDE), and the
           fatty acid synthase beta subunit.  The active site lies
           within a substrate-binding tunnel formed by the
           (R)-hydratase homodimer.  A subset of the bacterial
           (R)-hydratases contain a C-terminal
           phosphotransacetylase (PTA) domain..
          Length = 128

 Score = 27.8 bits (62), Expect = 4.1
 Identities = 11/39 (28%), Positives = 19/39 (48%), Gaps = 4/39 (10%)

Query: 229 LKLFARA----NYDHSYPEFSKETISNNPMDNGIWDNSL 263
           ++LFA      N  H   E++K+T     + +G+   SL
Sbjct: 18  VELFAELSGDFNPIHLDEEYAKKTRFGGRIAHGMLTASL 56


>gnl|CDD|145988 pfam03136, Pup_ligase, Pup-ligase protein.  Pupylation is a novel
           protein modification system found in some bacteria. This
           family of proteins are the enzyme that can conjugate
           proteins of the Pup family to lysine residues in target
           proteins marking them for degradation. The archetypal
           protein in this family is PafA (proteasome accessory
           factor) from Mycobacterium tuberculosis. It has been
           suggested that these proteins are related to
           gamma-glutamyl-cysteine synthetases.
          Length = 444

 Score = 27.6 bits (62), Expect = 5.1
 Identities = 12/29 (41%), Positives = 16/29 (55%), Gaps = 3/29 (10%)

Query: 233 ARANYDHSYPEFSK-ETISNNPMDNGIWD 260
           AR   DH++PE+S  E    NP D   +D
Sbjct: 76  ARLYVDHAHPEYSTPECT--NPRDLVAYD 102


>gnl|CDD|144479 pfam00898, Orbi_VP2, Orbivirus outer capsid protein VP2.  VP2 acts
           as an anchor for VP1 and VP3. VP2 contains a
           non-specific DNA and RNA binding domain in the
           N-terminus.
          Length = 946

 Score = 26.5 bits (59), Expect = 8.5
 Identities = 33/156 (21%), Positives = 56/156 (35%), Gaps = 39/156 (25%)

Query: 101 IQEQWEQAIMVAPTGWSMILWEKRNMLLISCPKNSLLSDKTFVMNVAHNNRWSSFHNWFT 160
           IQ  W+Q           IL ++ N+L I   K++ L +++ ++   + ++W      F 
Sbjct: 456 IQGGWDQERF----KLHKILKDEGNLLTIDFEKDAYLDNRSELVLPEYYDKWIL-SPMF- 509

Query: 161 QSYVVANENLFFGDYEGTFWQGDISGSDNARPFIGIYLSPFHA-------------IDPR 207
                 N  L           G+I+   N  P++   + P  A              D R
Sbjct: 510 ------NARLKISR-------GEIATRKNDDPWVKRTVKPIIADPAELLRYHLGRYYDLR 556

Query: 208 LGFQRRACVAHLSLQAYQRPYLKLFARANYDHSYPE 243
                 A    LSL+  Q  Y +L A+ +    Y E
Sbjct: 557 PCLFGDA----LSLKQSQSAYFELLAQLD---DYEE 585


>gnl|CDD|113085 pfam04301, DUF452, Protein of unknown function (DUF452). 
          Length = 213

 Score = 26.5 bits (58), Expect = 9.4
 Identities = 22/90 (24%), Positives = 32/90 (35%), Gaps = 20/90 (22%)

Query: 205 DPRLGFQRRACVAHLSLQAYQ----RPYLKLFARANYDHSYPEFSKETISNNPMDNGIWD 260
           D RL F+RR C      + YQ    RP               E   E I+       I  
Sbjct: 114 DNRLKFERRICGDKALFEDYQHFPARPTFG------------EIHAELIALFAF---IGQ 158

Query: 261 NSLWDEVKWTDNLFVTKKKLFQFCQNVVAY 290
           +   D ++W+  +  +  K+F    N  AY
Sbjct: 159 DRRTDLIRWSKAIVGSGDKIFM-AANQHAY 187


  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
   0.320    0.135    0.432 

Gapped
Lambda     K      H
   0.267   0.0566    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 4,079,982
Number of extensions: 215219
Number of successful extensions: 405
Number of sequences better than 10.0: 1
Number of HSP's gapped: 405
Number of HSP's successfully gapped: 9
Length of query: 320
Length of database: 6,263,737
Length adjustment: 94
Effective length of query: 226
Effective length of database: 4,232,491
Effective search space: 956542966
Effective search space used: 956542966
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: 57 (26.1 bits)