RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy13631
         (81 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 = 31.0 bits (71), Expect = 0.007
 Identities = 10/26 (38%), Positives = 13/26 (50%)

Query: 45 MLPVVGVKHAIAIDWDPVEQHLYWTD 70
           L   G+ H   +  D +E  LYWTD
Sbjct: 2  TLLSSGLGHPNGLAVDWIEGRLYWTD 27


>gnl|CDD|223552 COG0476, ThiF, Dinucleotide-utilizing enzymes involved in
          molybdopterin and thiamine biosynthesis family 2
          [Coenzyme metabolism].
          Length = 254

 Score = 27.4 bits (61), Expect = 0.61
 Identities = 10/34 (29%), Positives = 15/34 (44%), Gaps = 6/34 (17%)

Query: 50 GVKHAIAIDWDPVE------QHLYWTDDEARNKS 77
          GV     +D+D VE      Q L+   D  + K+
Sbjct: 53 GVGKLTIVDFDTVELSNLQRQFLFTEADVGKPKA 86


>gnl|CDD|235936 PRK07110, PRK07110, polyketide biosynthesis enoyl-CoA hydratase;
           Validated.
          Length = 249

 Score = 27.2 bits (61), Expect = 0.68
 Identities = 13/48 (27%), Positives = 19/48 (39%), Gaps = 3/48 (6%)

Query: 11  DNFTCANGSQEMLLLVQRTDICKISLDTPDHT-NVMLPVVGVK--HAI 55
            N+    G+QE LL +Q         +      N  +PV+     HAI
Sbjct: 59  PNYFATGGTQEGLLSLQTGKGTFTEANLYSLALNCPIPVIAAMQGHAI 106


>gnl|CDD|241299 cd01269, PTB_TBC1D1_like, TBC1 domain family member 1  and
          related proteins Phosphotyrosine-binding (PTB) domain. 
          The TBC1D1-like members here include TBC1D1, TBC1D4
          (also called Akt substrate of 160 kDa or AS160), and
          pollux (PLX), a calmodulin-binding protein, and are
          thought to have a role in regulating cell growth and
          differentiation. These proteins are thought to function
          as GTPase-activating protein for Rab family protein(s).
          They may play a role in the cell cycle and
          differentiation of various tissues. They all contain an
          N-terminal PTB domain, a calmodulin CBD domain, and a
          C-terminal TBC domain which is thought to be a GTPase
          activator protein of Rab-like small GTPases.  Recently,
          TBC1D1 and TBC1D4 were recognized to potentially link
          the proximal signalling of insulin and/or exercise with
          GLUT4. TBC1D4 is thought to be involved in
          contraction-stimulated glucose uptake, but
          TBC1D4-independent mechanisms (potentially involving
          TBC1D1) are likely to be essential for most of the
          contraction's effect. PTB domains have a common PH-like
          fold and are found in various eukaryotic signaling
          molecules. This domain was initially shown to binds
          peptides with a NPXY motif with differing requirements
          for phosphorylation of the tyrosine, although more
          recent studies have found that some types of PTB
          domains can bind to peptides lack tyrosine residues
          altogether. In contrast to SH2 domains, which recognize
          phosphotyrosine and adjacent carboxy-terminal residues,
          PTB-domain binding specificity is conferred by residues
          amino-terminal to the phosphotyrosine.  PTB domains are
          classified into three groups: phosphotyrosine-dependent
          Shc-like, phosphotyrosine-dependent IRS-like, and
          phosphotyrosine-independent Dab-like PTB domains. This
          cd is part of the Dab-like subgroup.
          Length = 142

 Score = 24.9 bits (55), Expect = 4.8
 Identities = 7/17 (41%), Positives = 11/17 (64%)

Query: 22 MLLLVQRTDICKISLDT 38
          ML  + R+++  IS DT
Sbjct: 63 MLFQIGRSELRLISPDT 79


>gnl|CDD|235531 PRK05605, PRK05605, long-chain-fatty-acid--CoA ligase; Validated.
          Length = 573

 Score = 25.0 bits (55), Expect = 5.5
 Identities = 10/25 (40%), Positives = 14/25 (56%), Gaps = 1/25 (4%)

Query: 1   MFHFYGVRLVDNFTCANGSQEMLLL 25
           MFH YG+ L      + G  E++LL
Sbjct: 271 MFHAYGLTLCLTLAVSIGG-ELVLL 294


>gnl|CDD|220247 pfam09451, ATG27, Autophagy-related protein 27. 
          Length = 265

 Score = 24.7 bits (54), Expect = 5.5
 Identities = 6/36 (16%), Positives = 13/36 (36%), Gaps = 1/36 (2%)

Query: 29  TDICKI-SLDTPDHTNVMLPVVGVKHAIAIDWDPVE 63
             IC +  +  PD  +++  VV    +     +   
Sbjct: 73  ARICGLTYVYLPDGKDIVTQVVDFGKSGQGSVEEEA 108


>gnl|CDD|225044 COG2133, COG2133, Glucose/sorbosone dehydrogenases [Carbohydrate
           transport and metabolism].
          Length = 399

 Score = 24.7 bits (54), Expect = 6.5
 Identities = 6/24 (25%), Positives = 11/24 (45%)

Query: 50  GVKHAIAIDWDPVEQHLYWTDDEA 73
           G ++   + W PV   L+ T+   
Sbjct: 237 GHRNPQGLAWHPVTGALWTTEHGP 260


  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
   0.322    0.137    0.438 

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: 4,062,023
Number of extensions: 300458
Number of successful extensions: 192
Number of sequences better than 10.0: 1
Number of HSP's gapped: 192
Number of HSP's successfully gapped: 9
Length of query: 81
Length of database: 10,937,602
Length adjustment: 50
Effective length of query: 31
Effective length of database: 8,719,902
Effective search space: 270316962
Effective search space used: 270316962
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)