RPS-BLAST 2.2.26 [Sep-21-2011]

Database: CDD.v3.10 
           44,354 sequences; 10,937,602 total letters

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

Query= psy10258
         (69 letters)



>gnl|CDD|216895 pfam02137, A_deamin, Adenosine-deaminase (editase) domain.
          Adenosine deaminases acting on RNA (ADARs) can
          deaminate adenosine to form inosine. In long
          double-stranded RNA, this process is non-specific; it
          occurs site-specifically in RNA transcripts. The former
          is important in defence against viruses, whereas the
          latter may affect splicing or untranslated regions.
          They are primarily nuclear proteins, but a longer
          isoform of ADAR1 is found predominantly in the
          cytoplasm. ADARs are derived from the Tad1-like tRNA
          deaminases that are present across eukaryotes. These in
          turn belong to the nucleotide/nucleic acid deaminase
          superfamily and are characterized by a distinct insert
          between the two conserved cysteines that are involved
          in binding zinc.
          Length = 329

 Score = 27.7 bits (62), Expect = 0.40
 Identities = 9/27 (33%), Positives = 15/27 (55%)

Query: 34 ILAIRAYILLFLKQLMMLGPGVKEDEL 60
          ILA R ++    +QL++L    KE  +
Sbjct: 28 ILARRGFLRFLYEQLLLLNSEGKESSI 54


>gnl|CDD|131508 TIGR02455, TreS_stutzeri, trehalose synthase, Pseudomonas stutzeri
           type.  Trehalose synthase catalyzes a one-step
           conversion of maltose to trehalose. This is an
           alternative to the OtsAB and TreYZ pathways. This family
           includes a characterized example from Pseudomonas
           stutzeri plus very closely related sequences from other
           Pseudomonads. Cutoff scores are set to find a more
           distantly related sequence from Desulfovibrio vulgaris,
           likely to be functionally equivalent, between trusted
           and noise limits [Energy metabolism, Biosynthesis and
           degradation of polysaccharides, Cellular processes,
           Adaptations to atypical conditions].
          Length = 688

 Score = 27.2 bits (60), Expect = 0.56
 Identities = 14/42 (33%), Positives = 24/42 (57%), Gaps = 2/42 (4%)

Query: 20  IPKGLDGPR--PAQKDILAIRAYILLFLKQLMMLGPGVKEDE 59
           +P G D     PAQ D L  + YI+  L++++   PG+K+ +
Sbjct: 191 VPAGRDAVNLLPAQCDELKAKHYIVGQLQRVIFFEPGIKDTD 232


>gnl|CDD|237247 PRK12886, ubiA, prenyltransferase; Reviewed.
          Length = 291

 Score = 24.7 bits (54), Expect = 4.3
 Identities = 16/42 (38%), Positives = 16/42 (38%), Gaps = 3/42 (7%)

Query: 12  NPRLKTGVIPKGLDGPRPAQKDILAIRAYILLFLKQLMMLGP 53
           NPR     IP GL     A   IL I    LL L     L P
Sbjct: 73  NPRTAGRAIPAGLISKGSA---ILFIVLSSLLMLFAAWFLNP 111


>gnl|CDD|165418 PHA03147, PHA03147, hypothetical protein; Provisional.
          Length = 280

 Score = 24.1 bits (52), Expect = 6.3
 Identities = 9/25 (36%), Positives = 11/25 (44%)

Query: 4   LKFYYWVVNPRLKTGVIPKGLDGPR 28
           L  Y W +NP    G   +G  G R
Sbjct: 76  LALYLWPLNPYRVPGNSVEGGLGQR 100


>gnl|CDD|237905 PRK15083, PRK15083, PTS system mannitol-specific transporter
           subunit IICBA; Provisional.
          Length = 639

 Score = 24.2 bits (53), Expect = 6.7
 Identities = 11/26 (42%), Positives = 16/26 (61%)

Query: 1   MHTLKFYYWVVNPRLKTGVIPKGLDG 26
           +H + F Y ++NPRL   VI  G+ G
Sbjct: 256 IHEIYFPYVLMNPRLILAVILGGMTG 281


  Database: CDD.v3.10
    Posted date:  Mar 20, 2013  7:55 AM
  Number of letters in database: 10,937,602
  Number of sequences in database:  44,354
  
Lambda     K      H
   0.325    0.144    0.437 

Gapped
Lambda     K      H
   0.267   0.0712    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,645,249
Number of extensions: 279768
Number of successful extensions: 255
Number of sequences better than 10.0: 1
Number of HSP's gapped: 255
Number of HSP's successfully gapped: 7
Length of query: 69
Length of database: 10,937,602
Length adjustment: 39
Effective length of query: 30
Effective length of database: 9,207,796
Effective search space: 276233880
Effective search space used: 276233880
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 53 (24.2 bits)