RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy5610
         (237 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 = 48.0 bits (113), Expect = 5e-08
 Identities = 18/82 (21%), Positives = 34/82 (41%), Gaps = 5/82 (6%)

Query: 16  HFSISAHLNNVNRAYLVICSDSLSALQTLQN--IFSLNPIAGEIRDLILTNKSKLNVRFI 73
                A     +   + I  DS   +  + +    S + I  +I + ++  +    +   
Sbjct: 48  ELEAFAMALTDSGPKVNIIVDSQYVMGIVASQPTESESKIVNQIIEEMIKKE---AIYVA 104

Query: 74  WVPSHVGIAGNEEADRLAKEAL 95
           WVP+H GI GN+E D L  + +
Sbjct: 105 WVPAHKGIGGNQEVDHLVSQGI 126


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

 Score = 43.8 bits (102), Expect = 3e-06
 Identities = 11/26 (42%), Positives = 13/26 (50%)

Query: 69  NVRFIWVPSHVGIAGNEEADRLAKEA 94
            VRF +V  H G   NE  DR A+  
Sbjct: 115 RVRFHFVKGHTGHPENERVDREARRQ 140


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

 Score = 42.7 bits (99), Expect = 6e-06
 Identities = 11/26 (42%), Positives = 15/26 (57%)

Query: 69  NVRFIWVPSHVGIAGNEEADRLAKEA 94
            +++ WV  H G   NE AD LA+ A
Sbjct: 113 QIKWEWVKGHAGHPENERADELARAA 138


>d1t9fa_ b.42.6.1 (A:) Hypothetical protein R12E2.13 (1D10)
           {Caenorhabditis elegans [TaxId: 6239]}
          Length = 178

 Score = 28.0 bits (62), Expect = 0.81
 Identities = 15/52 (28%), Positives = 21/52 (40%), Gaps = 1/52 (1%)

Query: 175 KKENPPICVPCGCVISVKHILTDCQTHS-NIRAPLNLSSTLLSCLKDNDISP 225
            K N    + CG  I +KH+ T    HS +  APL+     +S       S 
Sbjct: 61  AKCNRGDAIKCGDKIRLKHLTTGTFLHSHHFTAPLSKQHQEVSAFGSEAESD 112


>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 = 26.9 bits (59), Expect = 0.99
 Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 5/50 (10%)

Query: 31  LVICSDSLSALQTLQNIF--SLNPIAGEIRDLILTNKSKLNVRFIWVPSH 78
           + I +DS  AL  +Q     S + +  +I + +     K  V   WVP+H
Sbjct: 64  VNIVTDSQYALGIIQAQPDQSESELVNQIIEQL---IKKEKVYLAWVPAH 110


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

 Score = 26.7 bits (59), Expect = 2.8
 Identities = 17/85 (20%), Positives = 35/85 (41%), Gaps = 4/85 (4%)

Query: 31  LVICSDSLSALQTLQNIFSLNPIA-GEIRDLILTN-KSKLNVRFIWVPSHVGIAGNEEAD 88
           +    DSL A++ +  +F  N I   E++  +  + K+   ++ +   +       +E D
Sbjct: 552 VANIGDSLVAVKKI--VFDENKITPSELKKTLNNDFKNSEEIQALLKNAPKFGNDIDEVD 609

Query: 89  RLAKEALTSTHPTINKIPIPDYKAY 113
            LA+E        +NK   P    +
Sbjct: 610 NLAREGALVYCREVNKYTNPRGGNF 634


>d1ufaa1 a.8.3.3 (A:413-517) Hypothetical protein TT1467, domain 2
          {Thermus thermophilus [TaxId: 274]}
          Length = 105

 Score = 24.8 bits (54), Expect = 4.7
 Identities = 6/31 (19%), Positives = 8/31 (25%)

Query: 19 ISAHLNNVNRAYLVICSDSLSALQTLQNIFS 49
             H             + L AL+   N F 
Sbjct: 66 YEEHARAFFHLLKGASPEELRALEERDNPFP 96


>d1tcaa_ c.69.1.17 (A:) Triacylglycerol lipase {Yeast (Candida
           antarctica), form b [TaxId: 34362]}
          Length = 317

 Score = 25.8 bits (56), Expect = 5.5
 Identities = 7/25 (28%), Positives = 13/25 (52%)

Query: 74  WVPSHVGIAGNEEADRLAKEALTST 98
           +V  H G   ++ +  + + AL ST
Sbjct: 220 FVIDHAGSLTSQFSYVVGRSALRST 244


  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
   0.320    0.134    0.403 

Gapped
Lambda     K      H
   0.267   0.0529    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 845,529
Number of extensions: 37063
Number of successful extensions: 87
Number of sequences better than 10.0: 1
Number of HSP's gapped: 87
Number of HSP's successfully gapped: 14
Length of query: 237
Length of database: 2,407,596
Length adjustment: 83
Effective length of query: 154
Effective length of database: 1,268,006
Effective search space: 195272924
Effective search space used: 195272924
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: 51 (23.9 bits)