RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy11223
         (192 letters)



>gnl|CDD|107282 cd06287, PBP1_LacI_like_8, 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 = 269

 Score = 29.6 bits (67), Expect = 0.93
 Identities = 17/61 (27%), Positives = 22/61 (36%), Gaps = 11/61 (18%)

Query: 79  QVGDALLMERSQRSGRVVSIGIAPWGIVENNHELIGHNKDVPYHSISSPRSKFAVLNNRH 138
              D  +    QR   VVSIG  P           G   DVPY  + S  +   +L +  
Sbjct: 66  MADDPQVARLRQRGIPVVSIGRPP-----------GDRTDVPYVDLQSAATARMLLEHLR 114

Query: 139 A 139
           A
Sbjct: 115 A 115


>gnl|CDD|173156 PRK14693, PRK14693, hypothetical protein; Provisional.
          Length = 552

 Score = 28.2 bits (62), Expect = 3.3
 Identities = 24/91 (26%), Positives = 36/91 (39%), Gaps = 13/91 (14%)

Query: 44  LQPKLKKVLRKGLLKAAKTTGAWVFT----GGTNTGVTRQVGDALLMERSQRSGRVVSIG 99
           L P L ++L +G L A K    W+      G  + G      D   M   +R G    + 
Sbjct: 344 LPPPLPQILTEGWLTAYKHPQGWLLVFKSDGAFDVGKANVRAD--FMHNIERLG----LA 397

Query: 100 IAPWGIVENNHELIGHNKDVPYHSISSPRSK 130
            APW     + E+IGH    P  +   P ++
Sbjct: 398 FAPW---PGDLEVIGHTDSRPIRTSEFPDNQ 425


>gnl|CDD|143403 cd07084, ALDH_KGSADH-like, ALDH subfamily: NAD(P)+-dependent
           alpha-ketoglutaric semialdehyde dehydrogenases and plant
           delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH
           family 12-like.  ALDH subfamily which includes the
           NAD(P)+-dependent, alpha-ketoglutaric semialdehyde
           dehydrogenases (KGSADH, EC 1.2.1.26); plant
           delta(1)-pyrroline-5-carboxylate dehydrogenase (P5CDH,
           EC=1.5.1.12 ), ALDH family 12; the N-terminal domain of
           the MaoC (monoamine oxidase C) dehydratase regulatory
           protein; and orthologs of MaoC, PaaZ and PaaN, which are
           putative ring-opening enzymes of the aerobic
           phenylacetic acid catabolic pathway.
          Length = 442

 Score = 27.2 bits (60), Expect = 5.5
 Identities = 12/56 (21%), Positives = 20/56 (35%), Gaps = 1/56 (1%)

Query: 85  LMERSQRSGRVVSIGIAPWGIVENNHELIGHNKDVPYHSISSPRSKFAVLNNRHAY 140
           L+     +GR  +I     G+  N +   G   D     I  P +   ++   HA 
Sbjct: 386 LIGNLWVAGRTYAILRGRTGVAPNQNHGGGPAADPRGAGIGGPEAIK-LVWRCHAE 440


  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
   0.317    0.136    0.399 

Gapped
Lambda     K      H
   0.267   0.0762    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,851,523
Number of extensions: 921689
Number of successful extensions: 743
Number of sequences better than 10.0: 1
Number of HSP's gapped: 743
Number of HSP's successfully gapped: 9
Length of query: 192
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 100
Effective length of database: 6,857,034
Effective search space: 685703400
Effective search space used: 685703400
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: 56 (25.3 bits)