RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780895|ref|YP_003065308.1| hypothetical protein
CLIBASIA_03960 [Candidatus Liberibacter asiaticus str. psy62]
         (91 letters)



>gnl|CDD|113384 pfam04611, AalphaY_MDB, Mating type protein A alpha Y mating type
           dependent binding region.  This region is important for
           the mating type dependent binding of Y protein to the A
           alpha Z protein of another mating type in Schizophyllum
           commune.
          Length = 147

 Score = 28.7 bits (64), Expect = 0.33
 Identities = 22/83 (26%), Positives = 34/83 (40%), Gaps = 12/83 (14%)

Query: 18  SPLTIANLPPPNTRRWVARRKAEV---VAAVKGGLLSLEEACQIYTLTVEEFLSWQASIV 74
           + +    LP P+    +  R  E      A+K  L + E+AC  +   +EE     A  V
Sbjct: 37  TTVHFDPLPTPDLD-GLRTRLQEAKLPPKAIKSALSAYEKACARWRSDLEEAFDITAKSV 95

Query: 75  Q----HGLAGLR----TTQIQKY 89
                H L  LR    T Q++K+
Sbjct: 96  SPHNLHLLELLRFRLYTQQVEKW 118


>gnl|CDD|144517 pfam00945, Rhabdo_ncap, Rhabdovirus nucleocapsid protein.  The
           Nucleocapsid (N) Protein is said to have a "tight"
           structure. The carboxyl end of the N-terminal domain
           possesses an RNA binding domain. Sequence alignments
           show 2 regions of reasonable conservation, approx.
           64-103 and 201-329. A whole functional protein is
           required for encapsidation to take place.
          Length = 406

 Score = 27.7 bits (62), Expect = 0.76
 Identities = 12/39 (30%), Positives = 22/39 (56%), Gaps = 2/39 (5%)

Query: 33  WVARRKAEVVAAVKG--GLLSLEEACQIYTLTVEEFLSW 69
           + A R   +V+  K   GL+S    C++  L++EE ++W
Sbjct: 202 YAAIRFGTIVSRYKDCSGLVSFTHLCKVTGLSIEEAITW 240


>gnl|CDD|38652 KOG3442, KOG3442, KOG3442, Uncharacterized conserved protein
          [Function unknown].
          Length = 132

 Score = 26.5 bits (58), Expect = 1.6
 Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 2/50 (4%)

Query: 22 IANLPPPNTRRWVARRKAEVVAAVKGGLLSLEEACQIYTLTVEEFLSWQA 71
          IA       R+   +       A   G ++L+EA QI  L V+E L+ + 
Sbjct: 28 IAASQQAAARQAAGKSGTRSAEANSNGKITLQEAQQI--LNVKEPLNREE 75


>gnl|CDD|147411 pfam05203, Hom_end_hint, Hom_end-associated Hint.  Homing
          endonucleases are encoded by mobile DNA elements that
          are found inserted within host genes in all domains of
          life. The crystal structure of the homing nuclease
          PI-Sce revealed two domains: an endonucleolytic centre
          resembling the C-terminal domain of Drosophila
          melanogaster Hedgehog protein, and a a second domain
          containing the protein-splicing active site. This
          Domain corresponds to the latter protein-splicing
          domain.
          Length = 438

 Score = 25.6 bits (56), Expect = 3.5
 Identities = 8/16 (50%), Positives = 11/16 (68%)

Query: 11 YVIGPDGSPLTIANLP 26
           V+GPDG+P  +  LP
Sbjct: 26 LVMGPDGTPRRVIGLP 41


>gnl|CDD|146359 pfam03683, UPF0175, Uncharacterized protein family (UPF0175).
          This family contains small proteins of unknown
          function.
          Length = 76

 Score = 25.3 bits (56), Expect = 4.2
 Identities = 8/31 (25%), Positives = 16/31 (51%)

Query: 37 RKAEVVAAVKGGLLSLEEACQIYTLTVEEFL 67
          R    +   + G +SL +A ++  ++  EFL
Sbjct: 22 RLELAIKLYERGKISLGKAAELAGMSRWEFL 52


>gnl|CDD|34882 COG5290, COG5290, IkappaB kinase complex, IKAP component
           [Transcription].
          Length = 1243

 Score = 24.7 bits (53), Expect = 5.7
 Identities = 13/36 (36%), Positives = 16/36 (44%), Gaps = 7/36 (19%)

Query: 2   TEKIQSHMKYVIGPDGS-----PLTIANLPPPNTRR 32
                +   YVI  DGS     PL++ NLPPP    
Sbjct: 375 EYPFDNGTSYVI--DGSYMLYTPLSLKNLPPPMFSV 408


>gnl|CDD|31799 COG1611, COG1611, Predicted Rossmann fold nucleotide-binding
           protein [General function prediction only].
          Length = 205

 Score = 24.5 bits (53), Expect = 7.1
 Identities = 10/34 (29%), Positives = 15/34 (44%)

Query: 28  PNTRRWVARRKAEVVAAVKGGLLSLEEACQIYTL 61
              R+    R A+    + GG  +LEE  +  TL
Sbjct: 100 FAERKRAMVRSADAFIVLPGGFGTLEELFEALTL 133


  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
   0.318    0.132    0.389 

Gapped
Lambda     K      H
   0.267   0.0833    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 1,114,914
Number of extensions: 47661
Number of successful extensions: 131
Number of sequences better than 10.0: 1
Number of HSP's gapped: 131
Number of HSP's successfully gapped: 12
Length of query: 91
Length of database: 6,263,737
Length adjustment: 60
Effective length of query: 31
Effective length of database: 4,967,197
Effective search space: 153983107
Effective search space used: 153983107
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 (21.7 bits)
S2: 51 (23.2 bits)