RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781034|ref|YP_003065447.1| hypothetical protein
CLIBASIA_04680 [Candidatus Liberibacter asiaticus str. psy62]
         (344 letters)



>gnl|CDD|33948 COG4223, COG4223, Uncharacterized protein conserved in bacteria
           [Function unknown].
          Length = 422

 Score = 91.8 bits (227), Expect = 2e-19
 Identities = 58/219 (26%), Positives = 96/219 (43%), Gaps = 8/219 (3%)

Query: 120 TADKELANTQNFNIKPLLEEIASLKQLISDLSKNYQ-------DIVTRLTKMETLTANPL 172
            A +  +      +K L   + +L  L S L            ++  R+  +E     P 
Sbjct: 195 AALEAASAEPAPRVKALEVAVTALLPLESALPAERSTALAAVAELNGRIAALEQSLNEPA 254

Query: 173 RNPNTQRMVSLLILKNALDKGEYSSLNTTMQENFSVLKPCTATLMQFANIKIPTTIEILA 232
            +      ++   LK A+D+G          E+ +   P  A L  +A   +PT  E+  
Sbjct: 255 DDIEAALAIAATALKTAIDRGGPFLAELDTLESVAPGDPALAALRPYAATGVPTRAELAT 314

Query: 233 KFPKVSEEMVFASESLEKDSGFANYLLFQLTRLVKVRPIGGNIEGDAITDVIARIENNLK 292
           +F  V+  MV AS + + ++G  + L    + LV VRP+G ++EG     +IAR+E  L 
Sbjct: 315 QFGAVANAMVSASNNPDPNAGLFDRLRSSASSLVSVRPVG-SVEGSTPDAMIARMEAALD 373

Query: 293 TGDLVKAAAEWDKIPEKARQPSMFLRNALEAHICSDAIL 331
            GDL  A  EWD +PE A+  S      L+A I  + ++
Sbjct: 374 NGDLEGAVLEWDSLPEAAKAASADFAVKLKARIEVETLV 412


>gnl|CDD|38128 KOG2917, KOG2917, KOG2917, Predicted exosome subunit [Translation,
           ribosomal structure and biogenesis].
          Length = 250

 Score = 29.9 bits (67), Expect = 0.95
 Identities = 27/106 (25%), Positives = 44/106 (41%), Gaps = 11/106 (10%)

Query: 95  KDISPVIEKEIISQNLSIAQQKDEETADKELANTQNFNIKPLL----EEIASLKQLISDL 150
           KD+  V++   +  N+S  Q   +E   K    T    I   +    E   S K+  S L
Sbjct: 45  KDLDEVLQTHTVFSNVSKGQVAKKEDLIKAFGTTDETEICKEILSKGELQVSEKERHSQL 104

Query: 151 SKNYQDIVTRLTKMETLTANPLRNPNTQRMVSLLILKNALDKGEYS 196
            K ++DIVT +            NP T+R     +++ AL +  +S
Sbjct: 105 EKTFRDIVTIVAAKCV-------NPETKRPYPPSMIEKALQEIHFS 143


>gnl|CDD|100093 cd05800, PGM_like2, This PGM-like (phosphoglucomutase-like) protein
           of unknown function belongs to the
           alpha-D-phosphohexomutase superfamily and is found in
           both archaea and bacteria. The
           alpha-D-phosphohexomutases include several related
           enzymes that catalyze a reversible intramolecular
           phosphoryl transfer on their sugar substrates. Other
           members of this superfamily include phosphoglucosamine
           mutase (PNGM), phosphoacetylglucosamine mutase (PAGM),
           the bacterial phosphomannomutase ManB, the bacterial
           phosphoglucosamine mutase GlmM, and the bifunctional
           phosphomannomutase/phosphoglucomutase (PMM/PGM). Each of
           these enzymes has four structural domains (subdomains)
           with a centrally located active site formed by four
           loops, one from each subdomain. All four subdomains are
           included in this alignment model..
          Length = 461

 Score = 28.7 bits (65), Expect = 2.4
 Identities = 19/69 (27%), Positives = 31/69 (44%), Gaps = 4/69 (5%)

Query: 266 VKVRPIGGNIEGDAITDVIARIENNLKTGDLVKAAAEWDKIPEKARQPSMFLRNALEAHI 325
           VKV+P  G   G A+ ++ A IE  L +G+     A  + + E    P      AL + +
Sbjct: 109 VKVKPAFG---GSALPEITAAIEARLASGEPPGLEARAEGLIETI-DPKPDYLEALRSLV 164

Query: 326 CSDAILKEE 334
             +AI +  
Sbjct: 165 DLEAIREAG 173


>gnl|CDD|146138 pfam03348, Serinc, Serine incorporator (Serinc).  This is a family
           of eukaryotic membrane proteins which incorporate serine
           into membranes and facilitate the synthesis of the
           serine-derived lipids phosphatidylserine and
           sphingolipid. Members of this family contain 11
           transmembrane domains and form intracellular complexes
           with key enzymes involved in serine and sphingolipid
           biosynthesis.
          Length = 426

 Score = 28.4 bits (64), Expect = 3.2
 Identities = 13/28 (46%), Positives = 15/28 (53%), Gaps = 9/28 (32%)

Query: 38  FWEKILSNKTFFKILALVCVIVLTFIFI 65
           FW        FFKIL L+ +IV  F FI
Sbjct: 110 FW--------FFKILLLIGLIVGAF-FI 128


>gnl|CDD|30141 cd01643, Bacterial_IMPase_like_2, Bacterial family of Mg++
           dependent phosphatases, related to inositol
           monophosphatases. These enzymes may dephosphorylate
           inositol monophosphate or similar substrates..
          Length = 242

 Score = 28.0 bits (62), Expect = 4.1
 Identities = 15/45 (33%), Positives = 17/45 (37%), Gaps = 9/45 (20%)

Query: 294 GDLVKAAAEWDKIPEKARQPSMFLRNALEAHICSDAILKEEMAKI 338
           G LV AA  W        Q    +R  L A    D +L EE   I
Sbjct: 31  GSLVTAADRW------VEQ---LIRARLAAQFPDDGVLGEEGGGI 66


>gnl|CDD|145924 pfam03034, PSS, Phosphatidyl serine synthase.  Phosphatidyl serine
           synthase is also known as serine exchange enzyme. This
           family represents eukaryotic PSS I and II which are
           membrane bound proteins which catalyses the replacement
           of the head group of a phospholipid (phosphotidylcholine
           or phosphotidylethanolamine) by L-serine.
          Length = 278

 Score = 27.7 bits (62), Expect = 4.5
 Identities = 15/55 (27%), Positives = 26/55 (47%), Gaps = 7/55 (12%)

Query: 33  TWRKFFWEKILSNKTFFKILALVCVIVLTFIFIFTALFTEKFL---RTDNNLLLL 84
           +W K+ W+   S K F ++L LV +I+L  +      F  K +      + L+L 
Sbjct: 176 SWDKYEWKVFKSPKRFLQVLFLVFLILLAEL----NTFFLKHILWIPPSHPLVLY 226


>gnl|CDD|36159 KOG0941, KOG0941, KOG0941, E3 ubiquitin protein ligase
           [Posttranslational modification, protein turnover,
           chaperones].
          Length = 850

 Score = 27.6 bits (61), Expect = 4.6
 Identities = 11/61 (18%), Positives = 23/61 (37%), Gaps = 6/61 (9%)

Query: 27  CDVKKITWRKFFWEKILSNK------TFFKILALVCVIVLTFIFIFTALFTEKFLRTDNN 80
           C    I + +F+ E++            ++   + C     + FI  A+   + L+ D  
Sbjct: 416 CRKGLIPYEEFYNEELNDRIDMKEDYVHWRTKQMNCFSFCNYPFILNAVAKIELLQYDAR 475

Query: 81  L 81
           L
Sbjct: 476 L 476


>gnl|CDD|72858 cd04718, BAH_plant_2, BAH, or Bromo Adjacent Homology domain,
           plant-specific sub-family with unknown function. BAH
           domains are found in a variety of proteins playing roles
           in transcriptional silencing and the remodeling of
           chromatin. It is assumed that in most or all of these
           instances the BAH domain mediates protein-protein
           interactions..
          Length = 148

 Score = 27.7 bits (61), Expect = 4.7
 Identities = 20/65 (30%), Positives = 29/65 (44%), Gaps = 9/65 (13%)

Query: 284 IARIENNLKTGDLVKAAAEWDKIPEK---ARQP-----SMFLRNALEAHICSDAILKEEM 335
           +ARIE   +       AA W  +PE+    RQP      ++L N   A I  + IL+   
Sbjct: 55  LARIEKLWEENGTYWYAARWYTLPEETHMGRQPHNLRRELYLTNDF-ADIEMECILRHCS 113

Query: 336 AKIPQ 340
            K P+
Sbjct: 114 VKCPK 118


>gnl|CDD|177124 MTH00049, COX3, cytochrome c oxidase subunit III; Validated.
          Length = 215

 Score = 27.6 bits (62), Expect = 4.8
 Identities = 10/38 (26%), Positives = 16/38 (42%), Gaps = 6/38 (15%)

Query: 37 FFWEKILSNKTFFKILALVCVIVLTFIFIFTALFTEKF 74
          F W      K F  ++ L+  ++L  IF+   L   K 
Sbjct: 20 FLW------KPFILLVFLILWVLLIVIFVSDGLVQVKH 51


>gnl|CDD|29987 cd01121, Sms, Sms (bacterial radA) DNA repair protein. This protein
           is not related to archael radA any more than is to other
           RecA-like NTPases. Sms has a role in recombination and
           recombinational repair and is responsible for the
           stabilization or processing of branched DNA molecules..
          Length = 372

 Score = 27.1 bits (60), Expect = 7.0
 Identities = 24/72 (33%), Positives = 32/72 (44%), Gaps = 15/72 (20%)

Query: 207 SVLKPCTATLMQFANIK-IPTTI--------EILAKFPKVSEEMVFASESLEKDSGFANY 257
           S ++ CTA LM+FA  + IP  I         I    PKV E MV      E D     +
Sbjct: 183 SQVRECTAELMRFAKERNIPIFIVGHVTKEGSIAG--PKVLEHMVDTVLYFEGD----RH 236

Query: 258 LLFQLTRLVKVR 269
             +++ R VK R
Sbjct: 237 SEYRILRSVKNR 248


>gnl|CDD|113356 pfam04582, Reo_sigmaC, Reovirus sigma C capsid protein. 
          Length = 326

 Score = 27.2 bits (60), Expect = 7.4
 Identities = 18/76 (23%), Positives = 33/76 (43%), Gaps = 6/76 (7%)

Query: 134 KPLLEEIASLKQLISDLSKNYQDIVTRLTKMETLTANPLRNPNTQRMVSLLILKNALDKG 193
             L E ++++   +SDLS + QD+ T L      T N L         S+  L + L   
Sbjct: 45  ASLSESVSTISSRLSDLSADLQDMTTSLDDA-KATLNGLITTVQALQTSVDSLSSEL--- 100

Query: 194 EYSSLNTTMQENFSVL 209
             + L+ T+  + + +
Sbjct: 101 --ADLSLTVSAHDAAI 114


>gnl|CDD|112419 pfam03601, Cons_hypoth698, Conserved hypothetical protein 698. 
          Length = 305

 Score = 26.9 bits (60), Expect = 8.2
 Identities = 14/44 (31%), Positives = 18/44 (40%), Gaps = 6/44 (13%)

Query: 47  TFFKILA------LVCVIVLTFIFIFTALFTEKFLRTDNNLLLL 84
           T   I A      L+  IVL   F+      ++ L  D NL LL
Sbjct: 73  TLSDIAAVGLKGVLIDAIVLISTFLLVLFLGQRLLGLDKNLALL 116


  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
   0.316    0.132    0.364 

Gapped
Lambda     K      H
   0.267   0.0662    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,902,075
Number of extensions: 199855
Number of successful extensions: 607
Number of sequences better than 10.0: 1
Number of HSP's gapped: 605
Number of HSP's successfully gapped: 32
Length of query: 344
Length of database: 6,263,737
Length adjustment: 95
Effective length of query: 249
Effective length of database: 4,210,882
Effective search space: 1048509618
Effective search space used: 1048509618
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 58 (26.3 bits)