RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy3982
         (185 letters)



>d1u19a_ f.13.1.2 (A:) Rhodopsin {Cow (Bos taurus) [TaxId: 9913]}
          Length = 348

 Score = 70.4 bits (171), Expect = 2e-15
 Identities = 42/178 (23%), Positives = 79/178 (44%), Gaps = 16/178 (8%)

Query: 1   MRTRYVPEGNLTACGTDYLTKDWHH--RSYLIFYGFFVYFVPLILIIYAYYFIVRAVSVH 58
             +RY+PEG   +CG DY T        S++I+     + +PLI+I + Y  +V  V   
Sbjct: 174 GWSRYIPEGMQCSCGIDYYTPHEETNNESFVIYMFVVHFIIPLIVIFFCYGQLVFTVKEA 233

Query: 59  EKQMREQAKKMNVATLRSGDQSGTSAEIKLAKVALMTISLWFLAWTPYLVINFGGIL-EM 117
             Q +E A                 AE ++ ++ ++ +  + + W PY  + F     + 
Sbjct: 234 AAQQQESATTQ-------------KAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQG 280

Query: 118 VEINPLITIWGSVFAKANAVYNPIVYAISHPKFRQALDKKFPSLVCGTVESDSSSAAS 175
            +  P+     + FAK +AVYNP++Y + + +FR  +            + ++S+  S
Sbjct: 281 SDFGPIFMTIPAFFAKTSAVYNPVIYIMMNKQFRNCMVTTLCCGKNPLGDDEASTTVS 338


>d1rh5a_ f.41.1.1 (A:) Preprotein translocase SecY subunit {Archaeon
           Methanococcus jannaschii [TaxId: 2190]}
          Length = 422

 Score = 28.4 bits (63), Expect = 0.46
 Identities = 18/113 (15%), Positives = 38/113 (33%), Gaps = 19/113 (16%)

Query: 19  LTKDWHHRSYLIFYGFFVYFVPLILIIYAYYFIVRAVSVHEKQMREQAKKMN--VATLRS 76
           L+       + I Y   +        +    F V    +  K M ++   +   +   R 
Sbjct: 305 LSSVISDPIHAIVYMIAMIIT----CVMFGIFWVETTGLDPKSMAKRIGSLGMAIKGFRK 360

Query: 77  GDQSGTSAEIKLAKVALMTISLW------FLAWTPYLVINFGG---ILEMVEI 120
            ++   + E +L +  +  +++       FLA     +   GG   +L  V I
Sbjct: 361 SEK---AIEHRLKRY-IPPLTVMSSAFVGFLATIANFIGALGGGTGVLLTVSI 409


>d1ykwa1 c.1.14.1 (A:146-428) Ribulose 1,5-bisphosphate
           carboxylase-oxygenase {Chlorobium tepidum [TaxId: 1097]}
          Length = 283

 Score = 25.5 bits (56), Expect = 3.9
 Identities = 4/14 (28%), Positives = 10/14 (71%)

Query: 143 YAISHPKFRQALDK 156
           +A +HP+ +  +D+
Sbjct: 270 WAETHPELQAMVDQ 283


  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
   0.324    0.136    0.413 

Gapped
Lambda     K      H
   0.267   0.0348    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 687,301
Number of extensions: 29542
Number of successful extensions: 76
Number of sequences better than 10.0: 1
Number of HSP's gapped: 76
Number of HSP's successfully gapped: 6
Length of query: 185
Length of database: 2,407,596
Length adjustment: 80
Effective length of query: 105
Effective length of database: 1,309,196
Effective search space: 137465580
Effective search space used: 137465580
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: 50 (24.1 bits)