RPS-BLAST 2.2.26 [Sep-21-2011]

Database: scop70_1_75 
           13,730 sequences; 2,407,596 total letters

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

Query= psy2332
         (204 letters)



>d1h2sa_ f.13.1.1 (A:) Sensory rhodopsin II {Archaeon
           Natronobacterium pharaonis [TaxId: 2257]}
          Length = 225

 Score = 27.0 bits (59), Expect = 1.3
 Identities = 15/82 (18%), Positives = 27/82 (32%), Gaps = 8/82 (9%)

Query: 1   MLPYSLCRLITFGLGTLYPGYASYKALKFNDTPALLHWLTYW-IVSALFLTFTEIFLDLF 59
           ++  +   ++    G + PG   Y           +  + +  +V  L    TE      
Sbjct: 101 VITLNTVVMLAGFAGAMVPGIERY-------ALFGMGAVAFLGLVYYLVGPMTESASQRS 153

Query: 60  LGFWFPFYYEIKIIFILWLIYP 81
            G    +     +  ILW IYP
Sbjct: 154 SGIKSLYVRLRNLTVILWAIYP 175


>d1e12a_ f.13.1.1 (A:) Halorhodopsin {Archaeon Halobacterium
           salinarum [TaxId: 2242]}
          Length = 239

 Score = 26.9 bits (59), Expect = 1.5
 Identities = 19/83 (22%), Positives = 28/83 (33%), Gaps = 10/83 (12%)

Query: 6   LCRLITFGLGTLYPGYASYKALKFNDTPALLHWLTYWIVSALFL-TFTEIFLDLFLGFWF 64
           L  +I   +G    G A+        +  L  W  Y I  A F+   + +  D       
Sbjct: 111 LFTVIAADIGMCVTGLAA----AMTTSALLFRWAFYAISCAFFVVVLSALVTDWAASASS 166

Query: 65  PFYYEI-----KIIFILWLIYPA 82
               EI      +  +LWL YP 
Sbjct: 167 AGTAEIFDTLRVLTVVLWLGYPI 189


>d1szha_ a.226.1.1 (A:) Her-1 {Caenorhabditis elegans [TaxId: 6239]}
          Length = 147

 Score = 24.6 bits (53), Expect = 6.4
 Identities = 4/21 (19%), Positives = 10/21 (47%)

Query: 132 IKKLKEANVRQTPLYQKWNSC 152
           +  +K  ++    LY+ +  C
Sbjct: 106 LDSIKSCSLLDNVLYKCFEKC 126


>d1m0ka_ f.13.1.1 (A:) Bacteriorhodopsin {Archaeon Halobacterium
           salinarum [TaxId: 2242]}
          Length = 227

 Score = 24.6 bits (53), Expect = 9.8
 Identities = 10/41 (24%), Positives = 15/41 (36%)

Query: 41  YWIVSALFLTFTEIFLDLFLGFWFPFYYEIKIIFILWLIYP 81
            +I+  LF  FT     +       F     +  +LW  YP
Sbjct: 142 LYILYVLFFGFTSKAESMRPEVASTFKVLRNVTVVLWSAYP 182


  Database: scop70_1_75
    Posted date:  Mar 27, 2010  6:21 PM
  Number of letters in database: 2,407,596
  Number of sequences in database:  13,730
  
Lambda     K      H
   0.326    0.143    0.464 

Gapped
Lambda     K      H
   0.267   0.0544    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 834,739
Number of extensions: 39323
Number of successful extensions: 94
Number of sequences better than 10.0: 1
Number of HSP's gapped: 94
Number of HSP's successfully gapped: 7
Length of query: 204
Length of database: 2,407,596
Length adjustment: 81
Effective length of query: 123
Effective length of database: 1,295,466
Effective search space: 159342318
Effective search space used: 159342318
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.8 bits)