RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy16039
         (586 letters)



>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 = 45.3 bits (106), Expect = 2e-06
 Identities = 24/124 (19%), Positives = 44/124 (35%), Gaps = 8/124 (6%)

Query: 411 DSVLCFTDGSKTVNST--SCAYSIGNQVHAFKLNKVNSVLSSELMAILLCVKNLIFLPST 468
            +   +TDGS    S      Y         K  +  +   +EL A  + + +       
Sbjct: 6   GAETFYTDGSCNRQSKEGKAGYVTDRGKDKVKKLEQTTNQQAELEAFAMALTD----SGP 61

Query: 469 NFTLISDSMSALLAISNCKNDHPLVSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVD 528
              +I DS   +  +++   +    S +    +E     + +   W P+H GI GN+ VD
Sbjct: 62  KVNIIVDSQYVMGIVASQPTESE--SKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVD 119

Query: 529 IAAR 532
               
Sbjct: 120 HLVS 123


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

 Score = 38.0 bits (87), Expect = 7e-04
 Identities = 25/138 (18%), Positives = 38/138 (27%), Gaps = 19/138 (13%)

Query: 413 VLCFTDGSKTVNSTSCAYSI-----GNQVHAFKLNKVNSVLSSELMAILLCVKNLIFLPS 467
           V  FTDG+   N     ++       ++          +    EL A +  +K       
Sbjct: 4   VALFTDGACLGNPGPGGWAALLRFHAHEKLLSGGEACTTNNRMELKAAIEGLK--ALKEP 61

Query: 468 TNFTLISDSMSALLAISNCKNDHPLVSLVYT----------TWLEAKDCGKN--LNFVWC 515
               L +DS     A +    +        T           W           + F + 
Sbjct: 62  CEVDLYTDSHYLKKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMAPHRVRFHFV 121

Query: 516 PSHCGITGNELVDIAARN 533
             H G   NE VD  AR 
Sbjct: 122 KGHTGHPENERVDREARR 139


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

 Score = 33.1 bits (74), Expect = 0.034
 Identities = 14/57 (24%), Positives = 23/57 (40%)

Query: 486 CKNDHPLVSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAARNPITNITLKN 542
             +  P+ ++     L+A      + + W   H G   NE  D  AR    N TL++
Sbjct: 90  TADKKPVKNVDLWQRLDAALGQHQIKWEWVKGHAGHPENERADELARAAAMNPTLED 146


>d2d3sa1 b.29.1.1 (A:1-237) Legume lectin {Winged bean (Psophocarpus
           tetragonolobus), basic agglutinin [TaxId: 3891]}
          Length = 237

 Score = 28.5 bits (63), Expect = 2.0
 Identities = 15/64 (23%), Positives = 26/64 (40%)

Query: 147 WSQANGLIFSTDPQKSVCVLFSRARNPSFPKLYYSGVELKFANSTKFLGLVWDSKLNWSL 206
                G+     P   V V F   RN   P++ + G+++    STK +    D+    ++
Sbjct: 103 GGGYFGIYNPLSPYPFVAVEFDTFRNTWDPQIPHIGIDVNSVISTKTVPFTLDNGGIANV 162

Query: 207 HINY 210
            I Y
Sbjct: 163 VIKY 166


>d1vg0a1 c.3.1.3 (A:3-444,A:558-606) Rab escort protein 1 {Rat
           (Rattus norvegicus) [TaxId: 10116]}
          Length = 491

 Score = 28.1 bits (62), Expect = 3.6
 Identities = 13/53 (24%), Positives = 24/53 (45%), Gaps = 2/53 (3%)

Query: 96  RTPLSRADVGRDSLRSAADRKDVIRF--FFREEKREMGDKKILFRKTLDEVLK 146
           + P SRADV      +  +++ +++F  F  E +    + +     T  E LK
Sbjct: 268 QVPCSRADVFNSKQLTMVEKRMLMKFLTFCVEYEEHPDEYRAYEGTTFSEYLK 320


>d1nhca_ b.80.1.3 (A:) Polygalacturonase {Fungus (Aspergillus
           niger), endo-polygalacturonase I [TaxId: 5061]}
          Length = 336

 Score = 26.6 bits (58), Expect = 9.0
 Identities = 25/181 (13%), Positives = 48/181 (26%), Gaps = 20/181 (11%)

Query: 371 PPWSFQVPSIDF---SLHLDNKDNIPPIVFQQHFHDLVTNK---YSDSVLCFTDGSKTVN 424
           P  +  V + +       +DN D            D+  +     S + +   D    +N
Sbjct: 122 PVQAISVQATNVHLNDFTIDNSDGDDNGGHNTDGFDISESTGVYISGATVKNQDDCIAIN 181

Query: 425 STSCAYSIGNQVHAFKLNKVNSVLSSELMAI-LLCVKNLIFLPSTNFTLISDSMSALLAI 483
           S       G          + SV   +   +  + + +     S N   I         +
Sbjct: 182 SGESISFTGGTCSGGHGLSIGSVGGRDDNTVKNVTISDSTVSNSANGVRIKTIYKETGDV 241

Query: 484 SNCKNDHPLVSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAARNPITNITLKNC 543
           S                    D G  +   +       T +  +      PIT++T+   
Sbjct: 242 SEIT-------YSNIQLSGITDYGIVIEQDYENGSPTGTPSTGI------PITDVTVDGV 288

Query: 544 T 544
           T
Sbjct: 289 T 289


  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    0.137    0.426 

Gapped
Lambda     K      H
   0.267   0.0520    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 2,167,954
Number of extensions: 100930
Number of successful extensions: 215
Number of sequences better than 10.0: 1
Number of HSP's gapped: 214
Number of HSP's successfully gapped: 9
Length of query: 586
Length of database: 2,407,596
Length adjustment: 90
Effective length of query: 496
Effective length of database: 1,171,896
Effective search space: 581260416
Effective search space used: 581260416
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: 41 (22.0 bits)
S2: 55 (25.5 bits)