RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy6159
         (101 letters)



>gnl|CDD|219420 pfam07466, DUF1517, Protein of unknown function (DUF1517).  This
           family consists of several hypothetical glycine rich
           plant and bacterial proteins of around 300 residues in
           length. The function of this family is unknown.
          Length = 280

 Score = 28.1 bits (63), Expect = 0.76
 Identities = 17/44 (38%), Positives = 25/44 (56%), Gaps = 3/44 (6%)

Query: 40  EGRLDRW-IGERQPFREQTLS-VEDKIRQERESNPRPSAYKADA 81
           E + +R  + ER  F E+TLS V  + RQ+  +  R S+  ADA
Sbjct: 164 ESQFNRLSLEERSKFSEETLSNVNGQKRQKSYT-ARASSGDADA 206


>gnl|CDD|227110 COG4769, COG4769, Predicted membrane protein [Function unknown].
          Length = 181

 Score = 26.6 bits (59), Expect = 2.0
 Identities = 11/30 (36%), Positives = 17/30 (56%)

Query: 5  KHYAVVGLLEDLNVTLTVMENYIPRFFAHA 34
          +    + LL  L V L+++EN IP+ F  A
Sbjct: 7  RREVYLSLLTALAVVLSLLENIIPKPFPFA 36


>gnl|CDD|236845 PRK11099, PRK11099, putative inner membrane protein; Provisional.
          Length = 399

 Score = 26.0 bits (58), Expect = 3.5
 Identities = 8/18 (44%), Positives = 11/18 (61%)

Query: 84  TKLTIGCRLANFILTLPQ 101
            +L +GC LA F   +PQ
Sbjct: 122 ARLAMGCNLAAFFTGIPQ 139


>gnl|CDD|185231 PRK15331, PRK15331, chaperone protein SicA; Provisional.
          Length = 165

 Score = 25.0 bits (54), Expect = 6.9
 Identities = 9/15 (60%), Positives = 12/15 (80%)

Query: 30 FFAHASQIYNEGRLD 44
           +AHA + YN+GRLD
Sbjct: 40 LYAHAYEFYNQGRLD 54


>gnl|CDD|107272 cd06277, PBP1_LacI_like_1, Ligand-binding domain of uncharacterized
           DNA-binding regulatory proteins that are members of the
           LacI-GalR family of bacterial transcription repressors. 
           This group includes the ligand-binding domain of
           uncharacterized DNA-binding regulatory proteins that are
           members of the LacI-GalR family of bacterial
           transcription repressors. The LacI-GalR family
           repressors are composed of two functional domains: an
           N-terminal HTH (helix-turn-helix) domain, which is
           responsible for the DNA-binding specificity, and a
           C-terminal ligand-binding domain, which is homologous to
           the sugar-binding domain of ABC-type transport systems
           that contain the type I periplasmic binding protein-like
           fold.  As also observed in the periplasmic binding
           proteins, the C-terminal domain of the bacterial
           transcription repressor undergoes a conformational
           change upon ligand binding which in turn changes the DNA
           binding affinity of the repressor.
          Length = 268

 Score = 24.9 bits (55), Expect = 8.4
 Identities = 5/45 (11%), Positives = 13/45 (28%), Gaps = 4/45 (8%)

Query: 44  DRWIGERQPFREQTLSVEDKIRQERESNPRPSAYK----ADAQPT 84
           +R+ G ++   +  +   +      +        K        PT
Sbjct: 135 ERYEGYKKALLDHGIPFNEDYDITEKEEDEEDIGKFIDELKPLPT 179


>gnl|CDD|224541 COG1626, TreA, Neutral trehalase [Carbohydrate transport and
           metabolism].
          Length = 558

 Score = 25.1 bits (55), Expect = 9.1
 Identities = 11/49 (22%), Positives = 16/49 (32%)

Query: 15  DLNVTLTVMENYIPRFFAHASQIYNEGRLDRWIGERQPFREQTLSVEDK 63
           DLN  L  +E  I    A         R  R    R+    + L  ++ 
Sbjct: 355 DLNALLYKLEEIIANISAIKGDKETAERYQRKAEARRCAINKYLWDDEA 403


  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
   0.320    0.135    0.396 

Gapped
Lambda     K      H
   0.267   0.0721    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,093,193
Number of extensions: 411688
Number of successful extensions: 298
Number of sequences better than 10.0: 1
Number of HSP's gapped: 298
Number of HSP's successfully gapped: 8
Length of query: 101
Length of database: 10,937,602
Length adjustment: 67
Effective length of query: 34
Effective length of database: 7,965,884
Effective search space: 270840056
Effective search space used: 270840056
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: 53 (24.2 bits)