RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy2243
         (405 letters)



>d2gmha3 d.58.1.6 (A:483-584) Electron transfer
           flavoprotein-ubiquinone oxidoreductase, EFT-QO {Pig (Sus
           scrofa) [TaxId: 9823]}
          Length = 102

 Score = 69.9 bits (171), Expect = 1e-15
 Identities = 43/49 (87%), Positives = 46/49 (93%)

Query: 322 FDLLSSVALTGTNHEGDQPAHLTLKDDSVPVNTNLAVYDGPEGRFCPAG 370
           FDLLSSVAL+GTNHE DQPAHLTLKDDSVPVN NL++YDGPE RFCPAG
Sbjct: 1   FDLLSSVALSGTNHEHDQPAHLTLKDDSVPVNRNLSIYDGPEQRFCPAG 49


>d1mu2a1 c.55.3.1 (A:430-555) HIV RNase H (Domain of reverse
           transcriptase) {Human immunodeficiency virus type 2
           [TaxId: 11709]}
          Length = 126

 Score = 52.6 bits (125), Expect = 3e-09
 Identities = 27/123 (21%), Positives = 44/123 (35%), Gaps = 8/123 (6%)

Query: 149 VYTDGSKSD--SSVGCAFVIPQLHIVKKQTLNPKSSIFHAELLAISDAVSTIKSQSIGEA 206
            YTDGS +         +V  +     K+    +++   AEL A + A++    +     
Sbjct: 10  FYTDGSCNRQSKEGKAGYVTDRGKDKVKKL--EQTTNQQAELEAFAMALTDSGPKVN--- 64

Query: 207 VIISDSLSALQAISSMSHSNPLVQSIHEEISTIPNSTIKFFWCPSHVGIAGNDAADLEAK 266
            II DS   +  ++S    +            I    I   W P+H GI GN   D    
Sbjct: 65  -IIVDSQYVMGIVASQPTESESKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVDHLVS 123

Query: 267 SAL 269
             +
Sbjct: 124 QGI 126


>d2gmha1 c.3.1.2 (A:4-236,A:336-482) Electron transfer
           flavoprotein-ubiquinone oxidoreductase, EFT-QO {Pig (Sus
           scrofa) [TaxId: 9823]}
          Length = 380

 Score = 53.7 bits (128), Expect = 2e-08
 Identities = 21/44 (47%), Positives = 27/44 (61%), Gaps = 2/44 (4%)

Query: 280 GLTQ--LSGLFAHTPKPQKGDNTFLKPASECKPIEYPKPDGQVS 321
           G+      G+   T K +  D+  LKPA +C PIEYPKPDGQ+S
Sbjct: 337 GIFYWIFRGMEPWTLKHKGSDSDQLKPAKDCTPIEYPKPDGQIS 380


>d1jl1a_ c.55.3.1 (A:) RNase H (RNase HI) {Escherichia coli [TaxId:
           562]}
          Length = 152

 Score = 46.2 bits (108), Expect = 9e-07
 Identities = 27/146 (18%), Positives = 48/146 (32%), Gaps = 14/146 (9%)

Query: 147 VQVYTDGSKSD--SSVGCAFVIPQLHIVKKQTLN-PKSSIFHAELLAISDAVSTIKSQSI 203
           V+++T GS        G   ++      K  +    +++    EL+A   A+  +K  + 
Sbjct: 3   VEIFTAGSALGNPGPGGYGAILRYRGREKTFSAGYTRTTNNRMELMAAIVALEALKEHAE 62

Query: 204 GEAVIISDSLSALQAISSMSHSN-----------PLVQSIHEEISTIPNSTIKFFWCPSH 252
                 S  +         +                V       + +    IK+ W   H
Sbjct: 63  VILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDAALGQHQIKWEWVKGH 122

Query: 253 VGIAGNDAADLEAKSALENPISHDHG 278
            G   N+ AD  A++A  NP   D G
Sbjct: 123 AGHPENERADELARAAAMNPTLEDTG 148


>d1rila_ c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermophilus
           [TaxId: 274]}
          Length = 147

 Score = 45.7 bits (107), Expect = 1e-06
 Identities = 21/142 (14%), Positives = 45/142 (31%), Gaps = 19/142 (13%)

Query: 147 VQVYTDGSKSD--SSVGCAFVIP-QLHIVKKQTLNPKSSIFHAELLAISDAVSTIKSQSI 203
           V ++TDG+        G A ++    H          ++    EL A  + +  +K    
Sbjct: 4   VALFTDGACLGNPGPGGWAALLRFHAHEKLLSGGEACTTNNRMELKAAIEGLKALKEPCE 63

Query: 204 GEAVIISDSLSALQAISSMSHSNPLVQS--------------IHEEISTIPNSTIKFFWC 249
               + +DS    +A +         +                   +  +    ++F + 
Sbjct: 64  --VDLYTDSHYLKKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMAPHRVRFHFV 121

Query: 250 PSHVGIAGNDAADLEAKSALEN 271
             H G   N+  D EA+   ++
Sbjct: 122 KGHTGHPENERVDREARRQAQS 143


>d1smyd_ e.29.1.2 (D:) RNA-polymerase beta-prime {Thermus thermophilus
            [TaxId: 274]}
          Length = 1504

 Score = 27.8 bits (61), Expect = 3.4
 Identities = 9/26 (34%), Positives = 15/26 (57%)

Query: 180  KSSIFHAELLAISDAVSTIKSQSIGE 205
               +  A  ++I +AV  + +QSIGE
Sbjct: 1205 GYDLSMARPVSIGEAVGIVAAQSIGE 1230


>d1qqra_ d.15.5.1 (A:) Streptokinase {Streptococcus equisimilis
           [TaxId: 119602]}
          Length = 138

 Score = 26.4 bits (58), Expect = 4.2
 Identities = 11/39 (28%), Positives = 16/39 (41%)

Query: 65  PPYKVLYENSTKLNPTVGIQREILMNDIPFHKVILQREP 103
           P Y +   +S+ +     I R IL  D  F   +  RE 
Sbjct: 62  PGYTIYERDSSIVTHDNDIFRTILPMDQEFTYRVKNREQ 100


>d1h30a2 b.29.1.4 (A:461-678) Growth-arrest-specific protein Gas6
           {Human (Homo sapiens) [TaxId: 9606]}
          Length = 218

 Score = 26.0 bits (56), Expect = 6.6
 Identities = 14/84 (16%), Positives = 25/84 (29%), Gaps = 1/84 (1%)

Query: 80  TVGIQREILMNDIPFHKVILQREPKESWLHKKPSCNLSLTLYKKDGMPHQVFQQEFQRNM 139
           T     EI + D   H V +     E+ L    +   S     +      V ++  +  +
Sbjct: 100 TALALMEIKVCDGQEHVVTVSLRDGEATLEVDGTRGQSEVSAAQLQERLAVLERHLRSPV 159

Query: 140 NENYGDFVQVYTDGSKSDSS-VGC 162
               G    V    +   +   GC
Sbjct: 160 LTFAGGLPDVPVTSAPVTAFYRGC 183


>d1e2wa1 b.2.6.1 (A:1-168,A:233-251) Cytochrome f, large domain
           {Chlamydomonas reinhardtii [TaxId: 3055]}
          Length = 187

 Score = 25.4 bits (56), Expect = 9.9
 Identities = 9/14 (64%), Positives = 11/14 (78%)

Query: 148 QVYTDGSKSDSSVG 161
           QVY DG KS+ +VG
Sbjct: 158 QVYPDGKKSNFNVG 171


  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
   0.314    0.131    0.387 

Gapped
Lambda     K      H
   0.267   0.0596    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,402,838
Number of extensions: 62173
Number of successful extensions: 94
Number of sequences better than 10.0: 1
Number of HSP's gapped: 92
Number of HSP's successfully gapped: 10
Length of query: 405
Length of database: 2,407,596
Length adjustment: 87
Effective length of query: 318
Effective length of database: 1,213,086
Effective search space: 385761348
Effective search space used: 385761348
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 54 (24.9 bits)