RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781142|ref|YP_003065555.1| hypothetical protein
CLIBASIA_05230 [Candidatus Liberibacter asiaticus str. psy62]
         (82 letters)



>gnl|CDD|110081 pfam01054, MMTV_SAg, Mouse mammary tumour virus superantigen.  The
           mouse mammary tumour virus (MMTV) is a milk-transmitted
           type B retrovirus. The superantigen (SAg) is encoded by
           the long terminal repeat. The SAgs are also called PR73.
          Length = 314

 Score = 27.3 bits (60), Expect = 0.93
 Identities = 12/33 (36%), Positives = 19/33 (57%)

Query: 17  NRRQSLGSLLITVLKNARVPIKILMGQRNQLTM 49
           N+   +G LLIT+L+N  +P   +  Q  +L M
Sbjct: 131 NKTNPIGRLLITMLRNESLPFSTIFTQIQRLEM 163


>gnl|CDD|176237 cd08276, MDR7, Medium chain dehydrogenases/reductase
           (MDR)/zinc-dependent alcohol dehydrogenase-like family. 
           This group is a member of the medium chain
           dehydrogenases/reductase (MDR)/zinc-dependent alcohol
           dehydrogenase-like family, but lacks the zinc-binding
           sites of the zinc-dependent alcohol dehydrogenases. The
           medium chain dehydrogenases/reductase
           (MDR)/zinc-dependent alcohol dehydrogenase-like family,
           which contains the zinc-dependent alcohol dehydrogenase
           (ADH-Zn) and related proteins, is a diverse group of
           proteins related to the first identified member, class I
           mammalian ADH.  MDRs display a broad range of activities
           and are distinguished from the smaller short chain
           dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
           acids of the MDR).  The MDR proteins have 2 domains: a
           C-terminal NAD(P)-binding Rossmann fold domain of a
           beta-alpha form and an N-terminal catalytic domain with
           distant homology to GroES.  The MDR group contains a
           host of activities, including the founding alcohol
           dehydrogenase (ADH), quinone reductase, sorbitol
           dehydrogenase, formaldehyde dehydrogenase, butanediol
           DH, ketose reductase, cinnamyl reductase, and numerous
           others. The zinc-dependent alcohol dehydrogenases (ADHs)
           catalyze the  NAD(P)(H)-dependent interconversion of
           alcohols to aldehydes or ketones.  Active site zinc has
           a catalytic role, while structural zinc aids in
           stability.  ADH-like proteins typically form dimers
           (typically higher plants, mammals) or tetramers (yeast,
           bacteria), and generally have 2 tightly bound zinc atoms
           per subunit. The active site zinc is coordinated by a
           histidine, two cysteines, and a water molecule. The
           second zinc seems to play a structural role, affects
           subunit interactions, and is typically coordinated by 4
           cysteines.
          Length = 336

 Score = 27.1 bits (61), Expect = 1.0
 Identities = 13/38 (34%), Positives = 20/38 (52%), Gaps = 2/38 (5%)

Query: 29  VLKNARVPIKILMGQRNQL-TMIKFLFLHMIRTLIDQV 65
           + K A +   I +G R Q   M + +  H IR +ID+V
Sbjct: 274 LTKGATL-RGIAVGSRAQFEAMNRAIEAHRIRPVIDRV 310


>gnl|CDD|112090 pfam03260, Lipoprotein_11, Lepidopteran low molecular weight (30
           kD) lipoprotein. 
          Length = 253

 Score = 25.1 bits (55), Expect = 3.8
 Identities = 10/21 (47%), Positives = 13/21 (61%)

Query: 26  LITVLKNARVPIKILMGQRNQ 46
            I + +N RV  KIL  +RNQ
Sbjct: 145 FIPLWENNRVYFKILNTERNQ 165


  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
   0.329    0.140    0.379 

Gapped
Lambda     K      H
   0.267   0.0649    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 883,704
Number of extensions: 37052
Number of successful extensions: 116
Number of sequences better than 10.0: 1
Number of HSP's gapped: 116
Number of HSP's successfully gapped: 6
Length of query: 82
Length of database: 6,263,737
Length adjustment: 52
Effective length of query: 30
Effective length of database: 5,140,069
Effective search space: 154202070
Effective search space used: 154202070
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 51 (23.6 bits)