RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy17035
         (60 letters)



>gnl|CDD|215646 pfam00001, 7tm_1, 7 transmembrane receptor (rhodopsin family).
           This family contains, amongst other G-protein-coupled
           receptors (GCPRs), members of the opsin family, which
           have been considered to be typical members of the
           rhodopsin superfamily. They share several motifs, mainly
           the seven transmembrane helices, GCPRs of the rhodopsin
           superfamily. All opsins bind a chromophore, such as
           11-cis-retinal. The function of most opsins other than
           the photoisomerases is split into two steps: light
           absorption and G-protein activation. Photoisomerases, on
           the other hand, are not coupled to G-proteins - they are
           thought to generate and supply the chromophore that is
           used by visual opsins.
          Length = 251

 Score = 40.0 bits (94), Expect = 1e-05
 Identities = 18/49 (36%), Positives = 23/49 (46%)

Query: 2   AFVLCWSPYIVFDLLQVYGYIPRTQNYIAVATLIQSLAPLNSAANPIIY 50
            FVLCW PY +  LL     +   +       +   LA +NS  NPIIY
Sbjct: 203 VFVLCWLPYHIVLLLDSLCPLSIWRLLPTALLITLWLAYVNSCLNPIIY 251


>gnl|CDD|233149 TIGR00845, caca, sodium/calcium exchanger 1.  The Ca2+:Cation
           Antiporter (CaCA) Family (TC 2.A.19)Proteins of the CaCA
           family are found ubiquitously, having been identified in
           animals, plants, yeast, archaea and widely divergent
           bacteria.All of the characterized animal proteins
           catalyze Ca2+:Na+ exchange although some also transport
           K+. The NCX1 plasma membrane protein exchanges 3 Na+ for
           1 Ca2+. The E. coli ChaA protein catalyzes Ca2+:H+
           antiport but may also catalyze Na+:H+ antiport. All
           remaining well-characterized members of the family
           catalyze Ca2+:H+ exchange.This model is specific for the
           eukaryotic sodium ion/calcium ion exchangers of the Caca
           family [Transport and binding proteins, Other].
          Length = 928

 Score = 25.9 bits (57), Expect = 1.1
 Identities = 10/21 (47%), Positives = 13/21 (61%)

Query: 3   FVLCWSPYIVFDLLQVYGYIP 23
           FVL W  YI+F  L+ Y +I 
Sbjct: 906 FVLLWLLYILFSSLEAYCHIK 926


>gnl|CDD|226301 COG3778, COG3778, Uncharacterized protein conserved in bacteria
           [Function unknown].
          Length = 188

 Score = 24.0 bits (52), Expect = 4.6
 Identities = 8/33 (24%), Positives = 14/33 (42%)

Query: 21  YIPRTQNYIAVATLIQSLAPLNSAANPIIYCIF 53
            IP T  Y  +  L  +  PL    + ++ C+ 
Sbjct: 140 NIPATTIYRFMTCLDDAGDPLRIYEDKVLECLL 172


>gnl|CDD|214906 smart00910, HIRAN, The HIRAN protein (HIP116, Rad5p N-terminal)
          is found in the N-terminal regions of the SWI2/SNF2
          proteins typified by HIP116 and Rad5p.  HIRAN is found
          as a standalone protein in several bacteria and
          prophages, or fused to other catalytic domains, such as
          a nuclease of the restriction endonuclease fold and
          TDP1-like DNA phosphoesterases, in the eukaryotes. It
          has been predicted that this protein functions as a
          DNA-binding domain that probably recognises features
          associated with damaged DNA or stalled replication
          forks.
          Length = 90

 Score = 23.0 bits (50), Expect = 8.8
 Identities = 8/18 (44%), Positives = 11/18 (61%), Gaps = 1/18 (5%)

Query: 20 GYIPRTQNYIAVATLIQS 37
          GY+PR    I +A L+ S
Sbjct: 48 GYLPRDVARI-LAPLLDS 64


  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
   0.329    0.141    0.455 

Gapped
Lambda     K      H
   0.267   0.0743    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 2,941,015
Number of extensions: 194655
Number of successful extensions: 230
Number of sequences better than 10.0: 1
Number of HSP's gapped: 229
Number of HSP's successfully gapped: 8
Length of query: 60
Length of database: 10,937,602
Length adjustment: 31
Effective length of query: 29
Effective length of database: 9,562,628
Effective search space: 277316212
Effective search space used: 277316212
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: 53 (24.2 bits)