RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy2988
         (184 letters)



>gnl|CDD|220692 pfam10324, 7TM_GPCR_Srw, Serpentine type 7TM GPCR chemoreceptor
           Srw.  Chemoreception is mediated in Caenorhabditis
           elegans by members of the seven-transmembrane
           G-protein-coupled receptor class (7TM GPCRs) of proteins
           which are of the serpentine type. Srw is a solo family
           amongst the superfamilies of chemoreceptors.
           Chemoperception is one of the central senses of soil
           nematodes like C. elegans which are otherwise 'blind'
           and 'deaf'. The genes encoding Srw do not appear to be
           under as strong an adaptive evolutionary pressure as
           those of Srz.
          Length = 317

 Score = 43.0 bits (102), Expect = 3e-05
 Identities = 36/135 (26%), Positives = 55/135 (40%), Gaps = 14/135 (10%)

Query: 25  YYTFRVLFVHTGPCISL-VVRNLLFWQ-HKRDKLFKENKKSECKRLRDSNCTTLMLIVVV 82
           Y     +     PCI L ++  LL  +  K  K  K    S  K  R    TT ++I + 
Sbjct: 192 YLLIDGIVSKIIPCILLPILTILLIIELRKAKKSRKNLSSSSNKSDR----TTKLVIFMT 247

Query: 83  TVFLLVEIPLAVVTILHVI---SSSVTEILDYDAANVLVLFTNFFIIVSYPINFAIYCGM 139
             F + E PL +  I+         +  IL Y    + V+F+    I +   +  I   M
Sbjct: 248 ISFFIAEFPLGISYIIQFFFYDDPGIRLILTY----LSVIFSLLLTINAI-SHCLICFLM 302

Query: 140 SRQFRETFKELFIRG 154
           S Q+R+T K+LF   
Sbjct: 303 SSQYRKTAKKLFGCK 317


>gnl|CDD|234268 TIGR03580, EF_0832, conserved hypothetical protein
           EF_0832/AHA_3913.  Members of this family of relatively
           rare proteins are found in both Gram-positive (e.g.
           Enterococcus faecalis) and Gram-negative (e.g. Aeromonas
           hydrophila) bacteria, as part of a cluster of conserved
           proteins. The function is unknown [Unknown function,
           General].
          Length = 246

 Score = 28.7 bits (64), Expect = 1.5
 Identities = 15/44 (34%), Positives = 22/44 (50%)

Query: 90  IPLAVVTILHVISSSVTEILDYDAANVLVLFTNFFIIVSYPINF 133
           I + VV  L+  +S++ E L   A  VLV   N  I +  P+ F
Sbjct: 105 IGMIVVAFLNSTASAIPESLQVTAVKVLVPAANLLINIVMPVIF 148


>gnl|CDD|149877 pfam08943, CsiD, CsiD.  This family consists of various bacterial
           proteins pertaining to the non-haem Fe(II)-dependent
           oxygenase family. Exact function is unknown, but a
           putative role includes involvement in the control of
           utilisation of gamma-aminobutyric acid.
          Length = 297

 Score = 28.5 bits (64), Expect = 1.8
 Identities = 11/22 (50%), Positives = 13/22 (59%), Gaps = 1/22 (4%)

Query: 40  SLVVRNLLFWQHKRDKLFKENK 61
           SL+V N  FW H RD  F+ N 
Sbjct: 263 SLLVLNNYFWLHGRDP-FEPNP 283


>gnl|CDD|235092 PRK02963, PRK02963, carbon starvation induced protein; Validated.
          Length = 316

 Score = 28.5 bits (64), Expect = 1.9
 Identities = 11/32 (34%), Positives = 16/32 (50%), Gaps = 3/32 (9%)

Query: 40  SLVVRNLLFWQHKRDKLFKENK--KSECKRLR 69
             ++ N LFW H RD+ F  +   + E  R R
Sbjct: 275 KFLLINNLFWLHGRDR-FTPHPDLRRELMRQR 305


>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 = 28.4 bits (64), Expect = 2.1
 Identities = 24/126 (19%), Positives = 42/126 (33%), Gaps = 5/126 (3%)

Query: 1   MEQLQRPEHAAWVTWLSVDFYFT----AYYTFRVLFVHTGP-CISLVVRNLLFWQHKRDK 55
           +    R      VT   +DF       +Y     L     P  + LV   L+    ++  
Sbjct: 115 LFSWLRTVEEGNVTTCLIDFPEESTKRSYTLLSTLLGFVLPLLVILVCYTLILRTLRKRA 174

Query: 56  LFKENKKSECKRLRDSNCTTLMLIVVVTVFLLVEIPLAVVTILHVISSSVTEILDYDAAN 115
               ++    +          ML+VVV VF+L  +P  +V +L  +       L   A  
Sbjct: 175 RSGASQARAKRSSSKERKAAKMLLVVVVVFVLCWLPYHIVLLLDSLCPLSIWRLLPTALL 234

Query: 116 VLVLFT 121
           + +   
Sbjct: 235 ITLWLA 240


>gnl|CDD|222583 pfam14188, DUF4311, Domain of unknown function (DUF4311).  This
           family of proteins is functionally uncharacterized. This
           family of proteins is found in bacteria. Proteins in
           this family are approximately 260 amino acids in length.
          Length = 213

 Score = 27.8 bits (62), Expect = 3.0
 Identities = 15/44 (34%), Positives = 20/44 (45%)

Query: 90  IPLAVVTILHVISSSVTEILDYDAANVLVLFTNFFIIVSYPINF 133
           I   VV  L+  ++++ E L   A  VLV   N  I    PI F
Sbjct: 93  IGAIVVAFLNTTAAAIPESLQVIAVKVLVPAANLLINPVMPIIF 136


>gnl|CDD|216289 pfam01080, Presenilin, Presenilin.  Mutations in presenilin-1 are a
           major cause of early onset Alzheimer's disease. It has
           been found that presenilin-1 binds to beta-catenin
           in-vivo. This family also contains SPE proteins from
           C.elegans.
          Length = 403

 Score = 27.1 bits (60), Expect = 5.6
 Identities = 29/119 (24%), Positives = 49/119 (41%), Gaps = 12/119 (10%)

Query: 27  TFRVLFVHTGPCISLVVRNLL---FWQHKRDKL----FKENKKSECKRLRDS--NCTTLM 77
               LFV    C+ LVV  +    F++     L    F     +   +L DS  N   ++
Sbjct: 12  HVIWLFVPVSLCMLLVVATIKSVSFYEQNNGSLLYTPFHSFTPTTGNKLLDSLINTLIMI 71

Query: 78  LIVVVTVFLLVEIPL-AVVTILH--VISSSVTEILDYDAANVLVLFTNFFIIVSYPINF 133
            ++VV  FLLV         I+H  +I SS+  +  +    +  +F  + + + YP  F
Sbjct: 72  SVLVVMTFLLVVFYKYRFYKIIHGWLILSSLLLLFLFSYIYLQEVFKAYNVPMDYPTVF 130


>gnl|CDD|223660 COG0587, DnaE, DNA polymerase III, alpha subunit [DNA replication,
           recombination, and repair].
          Length = 1139

 Score = 26.9 bits (60), Expect = 8.4
 Identities = 10/26 (38%), Positives = 12/26 (46%), Gaps = 4/26 (15%)

Query: 120 FTNFFIIVSYPINFA----IYCGMSR 141
           F  +F+IV   I FA    I  G  R
Sbjct: 336 FPGYFLIVWDFIKFARDNGIPVGPGR 361


  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    0.140    0.433 

Gapped
Lambda     K      H
   0.267   0.0664    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,386,248
Number of extensions: 858528
Number of successful extensions: 1092
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1089
Number of HSP's successfully gapped: 47
Length of query: 184
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 93
Effective length of database: 6,901,388
Effective search space: 641829084
Effective search space used: 641829084
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: 56 (25.5 bits)