RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy6681
         (537 letters)



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

 Score = 88.5 bits (218), Expect = 9e-20
 Identities = 51/304 (16%), Positives = 97/304 (31%), Gaps = 26/304 (8%)

Query: 1   MLGNGTVVFVLIFARSKIDVPRFLVCNLAAADFFMGLYLGLLAVVDASTLGEFRMYAIPW 60
              N   ++V +  +       +++ NLA AD FM        +  +             
Sbjct: 52  FPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGCN 111

Query: 61  QMSAGCQMAGFMSVLSAELSVFTLAVITLERNYAITHAMHLNKRLSLKHAGYIMVCGWSF 120
                  + G +++       ++L V+ +ER   +   M  N R    HA   +   W  
Sbjct: 112 LEGFFATLGGEIAL-------WSLVVLAIERYVVVCKPMS-NFRFGENHAIMGVAFTWVM 163

Query: 121 AILMAVLPLFGISDYRKYATCLPFETTTGVWSLTY------IVFLMFINGVAFLILMGCY 174
           A+  A  PL G S Y                          I   +    +  +++  CY
Sbjct: 164 ALACAAPPLVGWSRYIPEGMQCSCGIDYYTPHEETNNESFVIYMFVVHFIIPLIVIFFCY 223

Query: 175 LKMYCAIRGSQA-------WNSNDSRIAKRMALLVFTDLLCWFPIALVALTAICGVHLVS 227
            ++   ++ + A           +  + + + ++V   L+CW P A VA           
Sbjct: 224 GQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSDF 283

Query: 228 LEQAKIFTVFVLPLNSCCNPFLYAILTKQFKKDCVMICKTIEESRVTRGIGRCRHSSNFS 287
                    F    ++  NP +Y ++ KQF+   V              +G    S+  S
Sbjct: 284 GPIFMTIPAFFAKTSAVYNPVIYIMMNKQFRNCMVTTL-----CCGKNPLGDDEASTTVS 338

Query: 288 NRQT 291
             +T
Sbjct: 339 KTET 342


>d1t2wa_ b.100.1.1 (A:) Sortase A {Staphylococcus aureus [TaxId:
           1280]}
          Length = 145

 Score = 27.0 bits (59), Expect = 3.9
 Identities = 6/19 (31%), Positives = 7/19 (36%)

Query: 140 TCLPFETTTGVWSLTYIVF 158
           T   +   TGVW    I  
Sbjct: 122 TADDYNEKTGVWEKRKIFV 140


>d2uubc1 d.52.3.1 (C:2-106) Ribosomal protein S3 N-terminal domain
           {Thermus thermophilus [TaxId: 274]}
          Length = 105

 Score = 25.2 bits (55), Expect = 8.6
 Identities = 11/51 (21%), Positives = 22/51 (43%), Gaps = 2/51 (3%)

Query: 320 LGERMSKPRPHRPRWSATKKVRRFWDCLHLQRKNHRHIRTDQYAYQIAEIQ 370
           +G R+   R    RW A KK  ++   L   ++    +  + Y+  +A + 
Sbjct: 7   IGFRLGITRDWESRWYAGKK--QYRHLLLEDQRIRGLLEKELYSAGLARVD 55


>d1w0pa3 b.68.1.1 (A:217-346,A:544-777) Vibrio cholerae sialidase
           {Vibrio cholerae [TaxId: 666]}
          Length = 364

 Score = 26.6 bits (57), Expect = 9.5
 Identities = 26/243 (10%), Positives = 59/243 (24%), Gaps = 6/243 (2%)

Query: 283 SSNFSNRQTPGNTNSIVDRSSREHFPHPQPCSCNLKLLGERMSKPRPHRPRWSATKKVRR 342
             N S+     +   I D SS            +    G+R+    P+   +S       
Sbjct: 65  QINVSDEFDFSDPRPIYDPSSNTVLVSYARWPTDAAQNGDRIKPWMPNGIFYSVYDVASG 124

Query: 343 FWDCLHLQRKNHRHIRTDQYAYQIAEIQQKQHKRASSVCSSENFSSSRSDSWKQNHHHCG 402
            W    +       I   +             +    +  +        +         G
Sbjct: 125 NWQAPIVNPGPGHGITLTRQQNIS------GSQNGRLIYPAIVLDRFFLNVMSIYSDDGG 178

Query: 403 IPMRLLDPKRRASSWLVTRKTSQDSNLSSSRNDSSGSANTASTSVSRISRSSNSSDRSKP 462
              +          W  +          +   +        +  +      +  +   + 
Sbjct: 179 SNWQTGSTLPIPFRWKSSSILETLEPSEADMVELQNGDLLLTARLDFNQIVNGVNYSPRQ 238

Query: 463 RLTRQSAIVDDPDLPNSPARLTVRFLTTIPSAAETSVVNEEESFAILHPTPDASPAGSPQ 522
           +   +   +    L  + A +     T    A+ T     + S  +L   P  +PAG+  
Sbjct: 239 QFLSKDGGITWSLLEANNANVFSNISTGTVDASITRFEQSDGSHFLLFTNPQGNPAGTNG 298

Query: 523 RKK 525
           R+ 
Sbjct: 299 RQN 301


  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
   0.323    0.133    0.409 

Gapped
Lambda     K      H
   0.267   0.0623    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,907,356
Number of extensions: 83969
Number of successful extensions: 178
Number of sequences better than 10.0: 1
Number of HSP's gapped: 177
Number of HSP's successfully gapped: 6
Length of query: 537
Length of database: 2,407,596
Length adjustment: 90
Effective length of query: 447
Effective length of database: 1,171,896
Effective search space: 523837512
Effective search space used: 523837512
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.2 bits)