RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy10887
         (222 letters)



>d1g8ta_ d.4.1.2 (A:) Sm endonuclease {Serratia marcescens [TaxId:
           615]}
          Length = 241

 Score =  134 bits (339), Expect = 8e-40
 Identities = 47/215 (21%), Positives = 78/215 (36%), Gaps = 27/215 (12%)

Query: 1   MKYGFPSLDS---LRSFDDFVLSYDRRNRTAYWVFEHLTKENTAYSEAVNRSKSEFFEDD 57
              G P+  S         + L+ +   + A WV  H+TK+  A     +     +  D 
Sbjct: 5   CAVGCPTGGSSNVSIVRHAYTLNNNSTTKFANWVAYHITKDTPA-----SGKTRNWKTDP 59

Query: 58  SIHEYFRGRNSDYKYSG----YDRGHLAAAGNHKANQKHLDQTFVLSNISPQVGAGFNRD 113
           +++       +DY  +      DRGH A   +        +    LSNI+PQ     N+ 
Sbjct: 60  ALNPADTLAPADYTGANAALKVDRGHQAPLASLAGVSD-WESLNYLSNITPQKSD-LNQG 117

Query: 114 KWAELEKHSRKLLKQ--YPNVYVCTGPLYLPMKSPNGKKYVNYEVIGDSN-VAVPTHFFK 170
            WA LE   RKL+ +    +VY  TGPLY              ++ G      +P+ ++K
Sbjct: 118 AWARLEDQERKLIDRADISSVYTVTGPLYERD---------MGKLPGTQKAHTIPSAYWK 168

Query: 171 IIVAENENGKLVMENYVLPNAVISDSTPLTSFMVS 205
           +I   N         ++              F V+
Sbjct: 169 VIFINNSPAVNHYAAFLFDQN-TPKGADFCQFRVT 202


>d2o3ba1 d.4.1.2 (A:35-274) Nuclease NucA {Anabaena sp., PCC 7120
           [TaxId: 1167]}
          Length = 240

 Score =  125 bits (315), Expect = 3e-36
 Identities = 50/204 (24%), Positives = 79/204 (38%), Gaps = 27/204 (13%)

Query: 11  LRSFDDFVLSYDRRNRTAYWVFEHLTKENTAYSEAVNRSKSEFFEDDSIHEYF-RGRNSD 69
           L   + + LSY+    TA WV   L              +  F  D ++   + R   S 
Sbjct: 25  LMVKNQYALSYNNSKGTANWVAWQLNSSWLGN----AERQDNFRPDKTLPAGWVRVTPSM 80

Query: 70  YKYSGYDRGHLAAAGNHKANQKHLDQTFVLSNISPQVGAGFNRDKWAELEKHSRKLLKQY 129
           Y  SGY RGH+A + +     +    TF+++N+ PQ     NR+ W  LE + R+L+ Q 
Sbjct: 81  YSGSGYARGHIAPSADRTKTTEDNAATFLMTNMMPQTPD-NNRNTWGNLEDYCRELVSQG 139

Query: 130 PNVYVCTGPLYLPMKSPNGKKYVNYEVIGDSNVAVPTHFFKIIVAENENG--------KL 181
             +Y+  GP     K   G             V VP   +KI+V  +  G          
Sbjct: 140 KELYIVAGPNGSLGKPLKG------------KVTVPKSTWKIVVVLDSPGSGLEGITANT 187

Query: 182 VMENYVLPNAVISDSTPLTSFMVS 205
            +    +PN     +    ++ VS
Sbjct: 188 RVIAVNIPNDP-ELNNDWRAYKVS 210


>d1ea0a2 c.1.4.1 (A:423-1193) Alpha subunit of glutamate synthase,
           central and FMN domains {Azospirillum brasilense [TaxId:
           192]}
          Length = 771

 Score = 26.8 bits (59), Expect = 2.5
 Identities = 13/60 (21%), Positives = 19/60 (31%), Gaps = 3/60 (5%)

Query: 64  RGRNSDYKYSGYDRGHLAAAGNHKANQKHLDQTFVLSNISPQVGAGFNRDKWAELEKHSR 123
             +      S Y  G    A              ++S IS   G G N  +   LE+H+ 
Sbjct: 286 MSKMGISVISSYRGGGNFEAIGLSRALVAEHFPAMVSRIS---GIGLNGIQKKVLEQHAT 342


>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the
           C-terminal domain {Escherichia coli [TaxId: 562]}
          Length = 234

 Score = 25.9 bits (56), Expect = 4.4
 Identities = 14/99 (14%), Positives = 27/99 (27%), Gaps = 4/99 (4%)

Query: 102 ISPQVGAGFNRDKWAELEKHSRKLLKQYPNVY----VCTGPLYLPMKSPNGKKYVNYEVI 157
           +  ++G G +      L     + L                L    +   G   V+ + +
Sbjct: 125 LMDEIGRGTSTYDGLSLAWACAENLANKIKALTLFATHYFELTQLPEKMEGVANVHLDAL 184

Query: 158 GDSNVAVPTHFFKIIVAENENGKLVMENYVLPNAVISDS 196
              +     H  +   A    G  V     +P  VI  +
Sbjct: 185 EHGDTIAFMHSVQDGAASKSYGLAVAALAGVPKEVIKRA 223


>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the
           C-terminal domain {Thermus aquaticus [TaxId: 271]}
          Length = 224

 Score = 25.2 bits (54), Expect = 5.7
 Identities = 22/140 (15%), Positives = 38/140 (27%), Gaps = 14/140 (10%)

Query: 62  YFRGRNSDYKYSG----YDRGHLAAAGNHKANQKHLDQTFVLSNISPQVGAGFNRDKWAE 117
           Y R   SD    G           A    +A +  L        +  +VG G +      
Sbjct: 82  YTRIGASDDLAGGKSTFMVEMEEVALILKEATENSLV-------LLDEVGRGTSSLDGVA 134

Query: 118 LEKHSRKLLKQYPNVYVCTGPLYLPMKSPNGKKYVNY--EVIGDSNVAVPTHFFKIIVAE 175
           +     + L +     +     Y  + +    +  N       ++   V  H      A 
Sbjct: 135 IATAVAEALHERRAYTLFA-THYFELTALGLPRLKNLHVAAREEAGGLVFYHQVLPGPAS 193

Query: 176 NENGKLVMENYVLPNAVISD 195
              G  V     LP  V++ 
Sbjct: 194 KSYGVEVAAMAGLPKEVVAR 213


  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
   0.319    0.135    0.402 

Gapped
Lambda     K      H
   0.267   0.0494    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 826,345
Number of extensions: 37554
Number of successful extensions: 67
Number of sequences better than 10.0: 1
Number of HSP's gapped: 59
Number of HSP's successfully gapped: 9
Length of query: 222
Length of database: 2,407,596
Length adjustment: 82
Effective length of query: 140
Effective length of database: 1,281,736
Effective search space: 179443040
Effective search space used: 179443040
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 (21.7 bits)
S2: 51 (24.0 bits)