RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy10297
         (270 letters)



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

 Score = 70.0 bits (170), Expect = 2e-14
 Identities = 20/85 (23%), Positives = 37/85 (43%), Gaps = 1/85 (1%)

Query: 150 KERKASTTLGIIMSAFTVCWLPFFVLALIRPFLSSPELIPHSISSFFLWLGYANSLLNPV 209
            E++ +  + I++ AF +CWLP+  +A    F            +   +    +++ NPV
Sbjct: 246 AEKEVTRMVIIMVIAFLICWLPYAGVAFYI-FTHQGSDFGPIFMTIPAFFAKTSAVYNPV 304

Query: 210 IYATLNRDFRKPFQQILYFKCSSLN 234
           IY  +N+ FR      L    + L 
Sbjct: 305 IYIMMNKQFRNCMVTTLCCGKNPLG 329


>d1eysm_ f.26.1.1 (M:) M (medium) subunit {Thermochromatium tepidum
           [TaxId: 1050]}
          Length = 318

 Score = 36.2 bits (84), Expect = 0.002
 Identities = 15/52 (28%), Positives = 20/52 (38%), Gaps = 7/52 (13%)

Query: 164 AFTVCWLPFFVLALIRPFL--SSPELIPHSISSFFLW-----LGYANSLLNP 208
           AF      + VL  IRP +  S  + +P  I     W     + Y N   NP
Sbjct: 148 AFAAAIFFYLVLGFIRPVMMGSWAKAVPFGIFPHLDWTAAFSIRYGNLYYNP 199


>d2j8cl1 f.26.1.1 (L:1-281) L (light) subunit {Rhodobacter
           sphaeroides [TaxId: 1063]}
          Length = 281

 Score = 33.1 bits (76), Expect = 0.023
 Identities = 14/52 (26%), Positives = 19/52 (36%), Gaps = 7/52 (13%)

Query: 164 AFTVCWLPFFVLALIRPFL--SSPELIPHSISSFFLW-----LGYANSLLNP 208
           AF    L +  L L RP +  +     P+ I +   W       Y N   NP
Sbjct: 120 AFAFAILAYLTLVLFRPVMMGAWGYAFPYGIWTHLDWVSNTGYTYGNFHYNP 171


>d2i5nl1 f.26.1.1 (L:1-273) L (light) subunit {Rhodopseudomonas
           viridis [TaxId: 1079]}
          Length = 273

 Score = 32.7 bits (75), Expect = 0.029
 Identities = 18/52 (34%), Positives = 20/52 (38%), Gaps = 7/52 (13%)

Query: 164 AFTVCWLPFFVLALIRPFL--SSPELIPHSISSFFLW-----LGYANSLLNP 208
           AF V    F VL + RP L  S     P+ I S   W       Y N   NP
Sbjct: 120 AFCVPIFMFCVLQVFRPLLLGSWGHAFPYGILSHLDWVNNFGYQYLNWHYNP 171


>d2i5nm1 f.26.1.1 (M:1-323) M (medium) subunit {Rhodopseudomonas
           viridis [TaxId: 1079]}
          Length = 323

 Score = 32.8 bits (75), Expect = 0.039
 Identities = 12/52 (23%), Positives = 15/52 (28%), Gaps = 7/52 (13%)

Query: 164 AFTVCWLPFFVLALIRPFL--SSPELIPHSISSFFLW-----LGYANSLLNP 208
            F         +  I P L  S  E +P  I     W     + Y N    P
Sbjct: 147 NFAAAIFFVLCIGCIHPTLVGSWSEGVPFGIWPHIDWLTAFSIRYGNFYYCP 198


>d2axta1 f.26.1.1 (A:10-344) Photosystem Q(B) protein 1, PsbA1
           {Thermosynechococcus elongatus [TaxId: 146786]}
          Length = 335

 Score = 32.1 bits (73), Expect = 0.065
 Identities = 14/54 (25%), Positives = 23/54 (42%), Gaps = 6/54 (11%)

Query: 161 IMSAFTVCWLPFFVLALIRPFL--SSPELIPHSISSFFLWL----GYANSLLNP 208
           I  A++      F + LI P    S  + +P  IS  F ++       N L++P
Sbjct: 134 ICVAYSAPLASAFAVFLIYPIGQGSFSDGMPLGISGTFNFMIVFQAEHNILMHP 187


>d1eysl_ f.26.1.1 (L:) L (light) subunit {Thermochromatium tepidum
           [TaxId: 1050]}
          Length = 280

 Score = 31.6 bits (72), Expect = 0.086
 Identities = 13/52 (25%), Positives = 21/52 (40%), Gaps = 7/52 (13%)

Query: 164 AFTVCWLPFFVLALIRPFL--SSPELIPHSISSFFLWL-----GYANSLLNP 208
           AF+     + VL  +RP L  +     P+ I S   W+      + +   NP
Sbjct: 128 AFSFAIGAYLVLVFVRPLLMGAWGHGFPYGILSHLDWVSNVGYQFLHFHYNP 179


>d2axtd1 f.26.1.1 (D:13-352) Photosystem II reaction center d2
           protein PsbD2 {Thermosynechococcus elongatus [TaxId:
           146786]}
          Length = 340

 Score = 28.6 bits (64), Expect = 0.82
 Identities = 15/60 (25%), Positives = 24/60 (40%), Gaps = 9/60 (15%)

Query: 158 LGI---IMSAFTVCWLPFFVLALIRPFLSS--PELIPHSISSFFLWL----GYANSLLNP 208
           +G+      AF+     F  + LI P   S         +++ F +L    G+ N  LNP
Sbjct: 124 VGVRPYNAIAFSAPIAVFVSVFLIYPLGQSSWFFAPSFGVAAIFRFLLFFQGFHNWTLNP 183


>d1sdoa_ c.52.1.21 (A:) Restriction endonuclease BstyI {Geobacillus
           stearothermophilus [TaxId: 1422]}
          Length = 203

 Score = 25.3 bits (55), Expect = 7.6
 Identities = 5/32 (15%), Positives = 11/32 (34%)

Query: 104 LRFQLAKERKASTTLGIIMTTSPNLRKKMQTN 135
               +A        +G+ +     L K+M + 
Sbjct: 142 FVKHMAFYVSDKIDVGVEILPMKELSKEMSSG 173


>d2a3la1 c.1.9.1 (A:212-839) AMP deaminase (AMPD), catalytic domain
           {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}
          Length = 628

 Score = 25.3 bits (55), Expect = 9.7
 Identities = 17/75 (22%), Positives = 24/75 (32%)

Query: 172 FFVLALIRPFLSSPELIPHSISSFFLWLGYANSLLNPVIYATLNRDFRKPFQQILYFKCS 231
           F  L L    L+   L  H+  S F      N   NP   + L   F K    I      
Sbjct: 222 FESLDLTGYDLNVDLLDVHADKSTFHRFDKFNLKYNPCGQSRLREIFLKQDNLIQGRFLG 281

Query: 232 SLNHMMREEFYHSQY 246
            +   +  +   S+Y
Sbjct: 282 EITKQVFSDLEASKY 296


  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
   0.319    0.130    0.384 

Gapped
Lambda     K      H
   0.267   0.0637    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 941,596
Number of extensions: 40808
Number of successful extensions: 63
Number of sequences better than 10.0: 1
Number of HSP's gapped: 62
Number of HSP's successfully gapped: 11
Length of query: 270
Length of database: 2,407,596
Length adjustment: 84
Effective length of query: 186
Effective length of database: 1,254,276
Effective search space: 233295336
Effective search space used: 233295336
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.0 bits)