RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy10247
         (315 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 = 44.9 bits (105), Expect = 1e-06
 Identities = 26/129 (20%), Positives = 44/129 (34%), Gaps = 14/129 (10%)

Query: 49  IFTDG--TKTATNTGFAYVSGDLCQTYRLNPLSSIFTAESLAILKCLEYIMSLVIVDNFN 106
            +TDG   + +      YV+       +    ++   AE  A    L             
Sbjct: 10  FYTDGSCNRQSKEGKAGYVTDRGKDKVKKLEQTTNQQAELEAFAMALTDSGP-------- 61

Query: 107 FRSVIICSDSRSSLEALRTQFTLNEISFNILCTVHQLKARDINIKFLWIPSHCGIVENER 166
              V I  DS+  +  + +Q    E    I+  + +   +   I   W+P+H GI  N+ 
Sbjct: 62  --KVNIIVDSQYVMGIVASQP--TESESKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQE 117

Query: 167 VDQAAKNSI 175
           VD      I
Sbjct: 118 VDHLVSQGI 126


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

 Score = 36.9 bits (84), Expect = 8e-04
 Identities = 23/139 (16%), Positives = 44/139 (31%), Gaps = 9/139 (6%)

Query: 49  IFTDG--TKTATNTGFAYV---SGDLCQTYRLNPLSSIFTAESLAILKCLEYI----MSL 99
           +FTDG         G+A +                ++    E  A ++ L+ +       
Sbjct: 6   LFTDGACLGNPGPGGWAALLRFHAHEKLLSGGEACTTNNRMELKAAIEGLKALKEPCEVD 65

Query: 100 VIVDNFNFRSVIICSDSRSSLEALRTQFTLNEISFNILCTVHQLKARDINIKFLWIPSHC 159
           +  D+   +            +          +    L     L      ++F ++  H 
Sbjct: 66  LYTDSHYLKKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMAPHRVRFHFVKGHT 125

Query: 160 GIVENERVDQAAKNSIYAQ 178
           G  ENERVD+ A+    +Q
Sbjct: 126 GHPENERVDREARRQAQSQ 144


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

 Score = 36.9 bits (84), Expect = 8e-04
 Identities = 24/141 (17%), Positives = 44/141 (31%), Gaps = 8/141 (5%)

Query: 49  IFTDGT--KTATNTGFAYV---SGDLCQTYRLNPLSSIFTAESLAILKCLEYIMSLVIVD 103
           IFT G+        G+  +    G           ++    E +A +  LE +     V 
Sbjct: 5   IFTAGSALGNPGPGGYGAILRYRGREKTFSAGYTRTTNNRMELMAAIVALEALKEHAEVI 64

Query: 104 NFNFRSVIICSDSRSSLEALRTQF---TLNEISFNILCTVHQLKARDINIKFLWIPSHCG 160
                  +    ++      +  +       +    L            IK+ W+  H G
Sbjct: 65  LSTDSQYVRQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDAALGQHQIKWEWVKGHAG 124

Query: 161 IVENERVDQAAKNSIYAQLLK 181
             ENER D+ A+ +     L+
Sbjct: 125 HPENERADELARAAAMNPTLE 145


>d1s1ta1 c.55.3.1 (A:430-539) HIV RNase H (Domain of reverse
           transcriptase) {Human immunodeficiency virus type 1
           [TaxId: 11676]}
          Length = 110

 Score = 30.7 bits (69), Expect = 0.067
 Identities = 19/112 (16%), Positives = 40/112 (35%), Gaps = 14/112 (12%)

Query: 49  IFTDGT--KTATNTGFAYVSGDLCQTYRLNPLSSIFTAESLAILKCLEYIMSLVIVDNFN 106
            + DG   +        YV+    Q       ++    E  AI   L+           +
Sbjct: 11  FYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----------S 60

Query: 107 FRSVIICSDSRSSLEALRTQFTLNEISFNILCTVHQLKARDINIKFLWIPSH 158
              V I +DS+ +L  ++ Q   +E    ++  + +   +   +   W+P+H
Sbjct: 61  GLEVNIVTDSQYALGIIQAQPDQSE--SELVNQIIEQLIKKEKVYLAWVPAH 110


>d2v8qe2 d.37.1.1 (E:23-181) 5'-AMP-activated protein kinase subunit
           gamma-1, AMPKg {Rat (Rattus norvegicus) [TaxId: 10116]}
          Length = 159

 Score = 28.3 bits (62), Expect = 0.86
 Identities = 15/105 (14%), Positives = 27/105 (25%), Gaps = 2/105 (1%)

Query: 173 NSIYAQLLKSVVVKDVIIQSKKTILNEWKTDWLE--NQLYERNKLREIKKDIKTWKTVHW 230
           +S+Y   +KS    D+I  S K ++ +      +    L           D K    V  
Sbjct: 3   SSVYTTFMKSHRCYDLIPTSSKLVVFDTSLQVKKAFFALVTNGVRAAPLWDSKKQSFVGM 62

Query: 231 RNRRDEIAVCRLRIGHTKLTQEYLFKKDAPPECRTCGVVLTIKHI 275
               D I +         +    L +                  +
Sbjct: 63  LTITDFINILHRYYKSALVQIYELEEHKIETWREVYLQDSFKPLV 107


>d1dfca1 b.42.5.1 (A:1008-1140) Fascin {Human (Homo sapiens) [TaxId:
           9606]}
          Length = 133

 Score = 26.8 bits (59), Expect = 1.9
 Identities = 6/38 (15%), Positives = 11/38 (28%)

Query: 278 QCKAYAALRRKWKLESTMEKILQDDHDIVLRCINNNRY 315
           +       R     +     +  DD    L+   + RY
Sbjct: 67  KDGNVTCEREVPGPDCRFLIVAHDDGRWSLQSEAHRRY 104


>d1r9da_ c.7.1.1 (A:) Glycerol dehydratase DhaB1 {Clostridium
           butyricum [TaxId: 1492]}
          Length = 786

 Score = 25.6 bits (56), Expect = 9.6
 Identities = 13/77 (16%), Positives = 30/77 (38%), Gaps = 6/77 (7%)

Query: 130 NEISFNILCTVHQLKARDINIKFLWIPSHCGIVENERVDQAAKNSIYAQLLKSVVVKDVI 189
           N++S+  L     +K    ++            + E + +AA+ +     L +    +VI
Sbjct: 355 NKVSYMALEAAVHVKLPQPSLSVRI---WNKTPD-EFLLRAAELTREGLGLPAYYNDEVI 410

Query: 190 IQS--KKTILNEWKTDW 204
           I +   + +  E   D+
Sbjct: 411 IPALVSRGLTLEDARDY 427


  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
   0.322    0.135    0.408 

Gapped
Lambda     K      H
   0.267   0.0484    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,166,830
Number of extensions: 51999
Number of successful extensions: 123
Number of sequences better than 10.0: 1
Number of HSP's gapped: 123
Number of HSP's successfully gapped: 11
Length of query: 315
Length of database: 2,407,596
Length adjustment: 85
Effective length of query: 230
Effective length of database: 1,240,546
Effective search space: 285325580
Effective search space used: 285325580
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 (22.0 bits)
S2: 53 (24.8 bits)