RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy11705
         (81 letters)



>gnl|CDD|233151 TIGR00852, pts-Glc, PTS system, maltose and glucose-specific
          subfamily, IIC component.  The PTS Glucose-Glucoside
          (Glc) Family (TC 4.A.1) Bacterial PTS transporters
          transport and concomitantly phosphorylate their sugar
          substrates, and typically consist of multiple subunits
          or protein domains. The Glc family includes permeases
          specific for glucose, N-acetylglucosamine and a large
          variety of a- and b-glucosides. However, not all
          b-glucoside PTS permeases are in this class, as the
          cellobiose (Cel) b-glucoside PTS permease is in the Lac
          family (TC #4.A.3). These permeases show limited
          sequence similarity with members of the Fru family (TC
          #4.A.2). Several of the E. coli PTS permeases in the
          Glc family lack their own IIA domains and instead use
          the glucose IIA protein (IIAglc or Crr). Most of these
          permeases have the B and C domains linked together in a
          single polypeptide chain, and a cysteyl residue in the
          IIB domain is phosphorylated by direct phosphoryl
          transfer from IIAglc(his~P). Those permeases which lack
          a IIA domain include the maltose (Mal),
          arbutin-salicin-cellobiose (ASC), trehalose (Tre),
          putative glucoside (Glv) and sucrose (Scr) permeases of
          E. coli. Most, but not all Scr permeases of other
          bacteria also lack a IIA domain. This model is specific
          for the IIC domain of the Glc family PTS transporters
          [Transport and binding proteins, Carbohydrates, organic
          alcohols, and acids, Signal transduction, PTS].
          Length = 289

 Score = 26.9 bits (60), Expect = 1.1
 Identities = 9/19 (47%), Positives = 11/19 (57%)

Query: 24 GIYRFLPLFFGVGAALEFA 42
            + FLPL F +GAA  F 
Sbjct: 3  AAFFFLPLLFAIGAAKGFG 21


>gnl|CDD|220974 pfam11085, YqhR, Conserved membrane protein YqhR.  This family is
           conserved in the Bacillaceae family of the Firmicutes.
           The function is not known.
          Length = 174

 Score = 26.2 bits (58), Expect = 2.0
 Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 1/34 (2%)

Query: 3   AFFYSLRLKRLLKAWPGQKYFGIYRFLPLFFGVG 36
           AF Y   LK++   WPG  Y G+  +L +FF + 
Sbjct: 86  AFLYYALLKKVKSMWPGILY-GLALWLLVFFVLN 118


>gnl|CDD|239159 cd02758, MopB_Tetrathionate-Ra, The MopB_Tetrathionate-Ra CD
           contains tetrathionate reductase, subunit A, (TtrA) and
           other related proteins. The Salmonella enterica
           tetrathionate reductase catalyses the reduction of
           trithionate but not sulfur or thiosulfate. Members of
           this CD belong to the molybdopterin_binding (MopB)
           superfamily of proteins.
          Length = 735

 Score = 26.2 bits (58), Expect = 2.1
 Identities = 11/28 (39%), Positives = 16/28 (57%)

Query: 27  RFLPLFFGVGAALEFAMIKWEVNNGEIN 54
           R++P+  G   AL  AMI+W + N   N
Sbjct: 266 RWVPIKPGGDGALAMAMIRWIIENERYN 293


>gnl|CDD|236879 PRK11195, PRK11195, lysophospholipid transporter LplT; Provisional.
          Length = 393

 Score = 26.0 bits (58), Expect = 2.2
 Identities = 8/16 (50%), Positives = 11/16 (68%)

Query: 31  LFFGVGAALEFAMIKW 46
           LF+G GA L F ++ W
Sbjct: 216 LFWGAGATLRFLVLAW 231


>gnl|CDD|189857 pfam01146, Caveolin, Caveolin.  All three known Caveolin forms
          have the FEDVIAEP caveolin 'signature motif' within
          their hydrophilic N-terminal domain. Caveolin 2 (Cav-2)
          is co-localised and co-expressed with Cav-1/VIP21,
          forms heterodimers with it and needs Cav-1 for proper
          membrane localisation. Cav-3 has greater protein
          sequence similarity to Cav-1 than to Cav-2. Cellular
          processes caveolins are involved in include vesicular
          transport, cholesterol homeostasis, signal
          transduction, and tumour suppression.
          Length = 148

 Score = 24.5 bits (54), Expect = 7.0
 Identities = 7/24 (29%), Positives = 12/24 (50%), Gaps = 1/24 (4%)

Query: 21 KYFGIYRFLPLFFGVGAALEFAMI 44
          KY+ IYR L     +  A  + ++
Sbjct: 67 KYW-IYRLLTALLAIPLAFVWGIL 89


>gnl|CDD|237510 PRK13795, PRK13795, hypothetical protein; Provisional.
          Length = 636

 Score = 24.6 bits (54), Expect = 7.6
 Identities = 16/69 (23%), Positives = 23/69 (33%), Gaps = 18/69 (26%)

Query: 2   GAFFYSLRLKRLLKAWPGQKYFGIYRFLPLFFGVGAALEFAMIKW-EVNNGEINFYKTYK 60
           G   + L   R             +RF P   G    L+  + KW  V+ G +   K   
Sbjct: 97  GHLRFDLLELR-------------WRFEPRLEGAKRLLKKRLKKWVIVDKGALEPIK--- 140

Query: 61  RNQAVILAE 69
            N   +LA 
Sbjct: 141 -NGKNVLAP 148


>gnl|CDD|237883 PRK14991, PRK14991, tetrathionate reductase subunit A; Provisional.
          Length = 1031

 Score = 24.2 bits (53), Expect = 8.9
 Identities = 11/28 (39%), Positives = 17/28 (60%)

Query: 27  RFLPLFFGVGAALEFAMIKWEVNNGEIN 54
           R+LP+  G  +AL   MI+W ++N   N
Sbjct: 341 RWLPIRPGTDSALAMGMIRWIIDNQRYN 368


  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
   0.326    0.140    0.428 

Gapped
Lambda     K      H
   0.267   0.0694    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,318,907
Number of extensions: 354799
Number of successful extensions: 443
Number of sequences better than 10.0: 1
Number of HSP's gapped: 443
Number of HSP's successfully gapped: 16
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: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (24.3 bits)