RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy8717
         (69 letters)



>d1mw9x_ e.10.1.1 (X:) DNA topoisomerase I, 67K N-terminal domain
           {Escherichia coli [TaxId: 562]}
          Length = 591

 Score = 41.0 bits (95), Expect = 2e-06
 Identities = 11/30 (36%), Positives = 17/30 (56%)

Query: 26  ISYGPCQTPTLGFCVERHDKIRTFKPEPYW 55
           +S G  Q+  +   VER  +I+ F PE +W
Sbjct: 190 LSAGRVQSVAVRLVVEREREIKAFVPEEFW 219


>d1i7da_ e.10.1.1 (A:) DNA topoisomerase III {Escherichia coli
           [TaxId: 562]}
          Length = 620

 Score = 31.9 bits (71), Expect = 0.003
 Identities = 11/31 (35%), Positives = 18/31 (58%)

Query: 25  LISYGPCQTPTLGFCVERHDKIRTFKPEPYW 55
           ++S G  QTP LG  V R ++I  F  + ++
Sbjct: 192 VLSVGRVQTPVLGLVVRRDEEIENFVAKDFF 222


>d1gkub3 e.10.1.1 (B:499-1054) Topoisomerase "domain" of reverse
           gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}
          Length = 556

 Score = 29.6 bits (65), Expect = 0.022
 Identities = 8/35 (22%), Positives = 15/35 (42%)

Query: 21  LDASLISYGPCQTPTLGFCVERHDKIRTFKPEPYW 55
            +   +S G  QT  LG+ ++R  + R  +     
Sbjct: 208 FNNRNLSAGRAQTLVLGWIIDRFQESRERRKIAIV 242


>d1gxie_ b.34.4.2 (E:) Photosystem I accessory protein E (PsaE)
          {Cyanobacterium (Synechocystis sp.), pcc 6803 [TaxId:
          1143]}
          Length = 73

 Score = 26.4 bits (58), Expect = 0.13
 Identities = 7/16 (43%), Positives = 10/16 (62%)

Query: 40 VERHDKIRTFKPEPYW 55
          + R DK+R  + E YW
Sbjct: 2  LNRGDKVRIKRTESYW 17


>d1qp3a_ b.34.4.2 (A:) Photosystem I accessory protein E (PsaE)
          {Cyanobacterium (Nostoc sp.), strain pcc8009 [TaxId:
          1180]}
          Length = 70

 Score = 25.9 bits (57), Expect = 0.16
 Identities = 8/16 (50%), Positives = 11/16 (68%)

Query: 40 VERHDKIRTFKPEPYW 55
          V+R  K+R  +PE YW
Sbjct: 2  VQRGSKVRILRPESYW 17


>d1jb0e_ b.34.4.2 (E:) Photosystem I accessory protein E (PsaE)
          {Synechococcus elongatus [TaxId: 32046]}
          Length = 69

 Score = 25.9 bits (57), Expect = 0.17
 Identities = 7/16 (43%), Positives = 11/16 (68%)

Query: 40 VERHDKIRTFKPEPYW 55
          V+R  K++  +PE YW
Sbjct: 1  VQRGSKVKILRPESYW 16


>d1cy9a_ e.10.1.1 (A:) DNA topoisomerase I, 67K N-terminal domain
          {Escherichia coli [TaxId: 562]}
          Length = 260

 Score = 26.1 bits (56), Expect = 0.32
 Identities = 5/14 (35%), Positives = 8/14 (57%)

Query: 49 FKPEPYWLLDLTLN 62
          F PE +W +D +  
Sbjct: 1  FVPEEFWEVDASTT 14


>d1mtyb_ a.25.1.2 (B:) Methane monooxygenase hydrolase beta subunit
           {Methylococcus capsulatus [TaxId: 414]}
          Length = 384

 Score = 22.9 bits (49), Expect = 5.0
 Identities = 5/43 (11%), Positives = 9/43 (20%)

Query: 23  ASLISYGPCQTPTLGFCVERHDKIRTFKPEPYWLLDLTLNLNG 65
           +            +       DKI   +        L   + G
Sbjct: 159 SQGAREALSDVTRVSLAFWGFDKIDIAQMIQLERGFLAKIVPG 201


  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    0.142    0.456 

Gapped
Lambda     K      H
   0.267   0.0644    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 272,604
Number of extensions: 9892
Number of successful extensions: 23
Number of sequences better than 10.0: 1
Number of HSP's gapped: 23
Number of HSP's successfully gapped: 8
Length of query: 69
Length of database: 2,407,596
Length adjustment: 37
Effective length of query: 32
Effective length of database: 1,899,586
Effective search space: 60786752
Effective search space used: 60786752
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: 47 (22.1 bits)