RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy959
         (109 letters)



>gnl|CDD|214531 smart00135, LY, Low-density lipoprotein-receptor YWTD domain.  Type
           "B" repeats in low-density lipoprotein (LDL) receptor
           that plays a central role in mammalian cholesterol
           metabolism. Also present in a variety of molecules
           similar to gp300/megalin.
          Length = 43

 Score = 56.1 bits (136), Expect = 2e-12
 Identities = 17/43 (39%), Positives = 27/43 (62%)

Query: 60  KVIIEKDLSQPSGLAIDFDDEMLYWTDAVREKIERSDLAGNNR 102
           + ++   L  P+GLA+D+ +  LYWTD   + IE ++L G NR
Sbjct: 1   RTLLSSGLGHPNGLAVDWIEGRLYWTDWGLDVIEVANLDGTNR 43


>gnl|CDD|225921 COG3386, COG3386, Gluconolactonase [Carbohydrate transport and
           metabolism].
          Length = 307

 Score = 35.1 bits (81), Expect = 0.003
 Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 1/53 (1%)

Query: 46  AGKILRTTMAGSLKKVIIEKDLSQPSGLAIDFDDEMLYWTDAVREKIERSDLA 98
            G + R    G + +++ + DL+ P+GLA   D + LY  D    +I R DL 
Sbjct: 142 TGSLYRVDPDGGVVRLLDD-DLTIPNGLAFSPDGKTLYVADTPANRIHRYDLD 193


>gnl|CDD|215683 pfam00058, Ldl_recept_b, Low-density lipoprotein receptor repeat
          class B.  This domain is also known as the YWTD motif
          after the most conserved region of the repeat. The YWTD
          repeat is found in multiple tandem repeats and has been
          predicted to form a beta-propeller structure.
          Length = 42

 Score = 27.9 bits (63), Expect = 0.19
 Identities = 13/42 (30%), Positives = 22/42 (52%), Gaps = 3/42 (7%)

Query: 35 LYYTDWGRFGTAGKILRTTMAGSLKKVIIEKDLSQPSGLAID 76
          LY+TD         I    + GS ++ +  +DL  P+G+A+D
Sbjct: 3  LYWTDSS---LRASISVADLNGSDRRTLFSEDLQWPNGIAVD 41



 Score = 25.2 bits (56), Expect = 1.8
 Identities = 12/25 (48%), Positives = 16/25 (64%), Gaps = 1/25 (4%)

Query: 82  LYWTDAV-REKIERSDLAGNNREAL 105
           LYWTD+  R  I  +DL G++R  L
Sbjct: 3   LYWTDSSLRASISVADLNGSDRRTL 27


>gnl|CDD|190082 pfam01731, Arylesterase, Arylesterase.  This family consists of
          arylesterases (Also known as serum paraoxonase)
          EC:3.1.1.2. These enzymes hydrolyse organophosphorus
          esters such as paraoxon and are found in the liver and
          blood. They confer resistance to organophosphate
          toxicity. Human arylesterase (PON1) is associated with
          HDL and may protect against LDL oxidation.
          Length = 86

 Score = 26.7 bits (59), Expect = 1.5
 Identities = 8/35 (22%), Positives = 15/35 (42%), Gaps = 1/35 (2%)

Query: 60 KVIIEKDLSQPSGLAIDFDDEMLYWTDAVREKIER 94
          KV+     S  +G+    D + +Y   ++R  I  
Sbjct: 47 KVVASG-FSFANGINYSPDKKYIYVASSLRHSIHV 80


>gnl|CDD|219847 pfam08450, SGL, SMP-30/Gluconolaconase/LRE-like region.  This
           family describes a region that is found in proteins
           expressed by a variety of eukaryotic and prokaryotic
           species. These proteins include various enzymes, such as
           senescence marker protein 30 (SMP-30), gluconolactonase
           and luciferin-regenerating enzyme (LRE). SMP-30 is known
           to hydrolyse diisopropyl phosphorofluoridate in the
           liver, and has been noted as having sequence similarity,
           in the region described in this family, with PON1 and
           LRE.
          Length = 245

 Score = 27.2 bits (61), Expect = 1.6
 Identities = 18/71 (25%), Positives = 30/71 (42%), Gaps = 14/71 (19%)

Query: 40  WGRF--GT----------AGKILRTTMAGSLKKVIIEKDLSQPSGLAIDFDDEMLYWTDA 87
            GRF  GT           G + R    G +++V+    ++  +GLA   D + LY+ D+
Sbjct: 95  DGRFWFGTMGFDIAPGGEPGALYRLDPDGKVERVL--DGITISNGLAWSPDGKTLYFADS 152

Query: 88  VREKIERSDLA 98
              +I   D  
Sbjct: 153 PTRRIWAFDYD 163


>gnl|CDD|236941 PRK11634, PRK11634, ATP-dependent RNA helicase DeaD; Provisional.
          Length = 629

 Score = 27.1 bits (60), Expect = 2.3
 Identities = 17/39 (43%), Positives = 22/39 (56%), Gaps = 7/39 (17%)

Query: 44  GTAGKILRTTMAGSLKKVIIEKDLSQPSGLAIDFDDEML 82
           GT G++L     G+L       DLS+ SGL +D  DEML
Sbjct: 131 GTPGRLLDHLKRGTL-------DLSKLSGLVLDEADEML 162


>gnl|CDD|227496 COG5167, VID27, Protein involved in vacuole import and degradation
           [Intracellular trafficking and secretion].
          Length = 776

 Score = 25.3 bits (55), Expect = 7.7
 Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 5/58 (8%)

Query: 49  ILRTTMAGSLKKVIIEKDLSQPSGLAIDFDDEMLYWTDAVREKIERSDLAGNNREALY 106
           + + T  GSL+     K++S   G +ID +  ML+  D     I    L G  R+ LY
Sbjct: 441 VFKNTDEGSLEFKAAIKNVSDDGGKSIDPEKIMLHDND--SSLIY---LDGGERDKLY 493


>gnl|CDD|180907 PRK07251, PRK07251, pyridine nucleotide-disulfide oxidoreductase;
          Provisional.
          Length = 438

 Score = 25.1 bits (55), Expect = 9.7
 Identities = 13/35 (37%), Positives = 20/35 (57%), Gaps = 1/35 (2%)

Query: 43 FGTAGKILRTTMAGSLKKV-IIEKDLSQPSGLAID 76
          FG AGK L   +A + KKV ++E+  +   G  I+
Sbjct: 11 FGKAGKTLAAKLASAGKKVALVEESKAMYGGTCIN 45


  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
   0.321    0.138    0.406 

Gapped
Lambda     K      H
   0.267   0.0778    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,817,986
Number of extensions: 515605
Number of successful extensions: 393
Number of sequences better than 10.0: 1
Number of HSP's gapped: 393
Number of HSP's successfully gapped: 15
Length of query: 109
Length of database: 10,937,602
Length adjustment: 74
Effective length of query: 35
Effective length of database: 7,655,406
Effective search space: 267939210
Effective search space used: 267939210
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 (21.9 bits)
S2: 53 (24.1 bits)