RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12450
         (168 letters)



>d1ih7a2 e.8.1.1 (A:376-903) Family B DNA polymerase {Bacteriophage
           RB69 [TaxId: 12353]}
          Length = 528

 Score =  109 bits (272), Expect = 4e-29
 Identities = 32/124 (25%), Positives = 51/124 (41%), Gaps = 12/124 (9%)

Query: 46  KNFIIPTYHGGQGEDQFEGATVIEPKKGYYADPIATLDFSSLYPSIMMAHNLCYTTLLTP 105
           +N +IP          + GA V EP    Y   + + D +SLYPSI+   N+   T+   
Sbjct: 1   QNKVIPQ-GRSHPVQPYPGAFVKEPIPNRY-KYVMSFDLTSLYPSIIRQVNISPETIAGT 58

Query: 106 QTITKL--------ELTPDQYSKTPCGNFFLKSSLRKGLLPEILENLLSARKQAKNDLKK 157
             +  L        E   D YS +P G  + K   R G++P  +  + + RK+ K  +  
Sbjct: 59  FKVAPLHDYINAVAERPSDVYSCSPNGMMYYKD--RDGVVPTEITKVFNQRKEHKGYMLA 116

Query: 158 ETDE 161
               
Sbjct: 117 AQRN 120


>d1q8ia2 e.8.1.1 (A:390-783) Family B DNA polymerase {Escherichia
           coli [TaxId: 562]}
          Length = 394

 Score =  104 bits (260), Expect = 8e-28
 Identities = 24/96 (25%), Positives = 37/96 (38%), Gaps = 8/96 (8%)

Query: 55  GGQGEDQFEGATVIEPKKGYYADPIATLDFSSLYPSIMMAHNLCYTTLLTPQTITKLELT 114
           G        G  V++ + G Y D +  LD+ SLYPSI+    +    L+         + 
Sbjct: 3   GEVPPHASPGGYVMDSRPGLY-DSVLVLDYKSLYPSIVRTFLIDPVGLVE-------GMA 54

Query: 115 PDQYSKTPCGNFFLKSSLRKGLLPEILENLLSARKQ 150
                 +  G      S  K  LPEI+ N+   R +
Sbjct: 55  QPDPEHSTEGFLDAWFSREKHCLPEIVTNIWHGRDE 90


>d1tgoa2 e.8.1.1 (A:348-773) Family B DNA polymerase {Archaeon
           Thermococcus gorgonarius [TaxId: 71997]}
          Length = 426

 Score =  104 bits (259), Expect = 2e-27
 Identities = 34/120 (28%), Positives = 55/120 (45%), Gaps = 14/120 (11%)

Query: 45  QKNFIIPTY----HGGQGEDQFEGATVIEPKKGYYADPIATLDFSSLYPSIMMAHNLCYT 100
           ++N + P         +  + + G  V EP++G + + I  LDF SLYPSI++ HN+   
Sbjct: 16  ERNELAPNKPDERELARRRESYAGGYVKEPERGLW-ENIVYLDFRSLYPSIIITHNVSPD 74

Query: 101 TLLTPQTITKLELTPDQYSKTPCGNFFLKSSLRKGLLPEILENLLSARKQAKNDLKKETD 160
           TL         E   +       G+ F K     G +P +L +LL  R++ K  +K   D
Sbjct: 75  TL-------NREGCEEYDVAPQVGHKFCKD--FPGFIPSLLGDLLEERQKVKKKMKATID 125


>d1s5ja2 e.8.1.1 (A:450-864) Family B DNA polymerase {Sulfolobus
           solfataricus [TaxId: 2287]}
          Length = 415

 Score = 93.8 bits (232), Expect = 1e-23
 Identities = 30/118 (25%), Positives = 46/118 (38%), Gaps = 18/118 (15%)

Query: 45  QKNFIIP------------TYHGGQGEDQFEGATVIEPKKGYYADPIATLDFSSLYPSIM 92
           ++N++IP                      ++GA VI+P  G +   I  LDF+SLYPSI+
Sbjct: 16  KRNWLIPLKEEILAKSSNIRTSALIKGKGYKGAVVIDPPAGIF-FNITVLDFASLYPSII 74

Query: 93  MAHNLCYTTLLTPQTITKLELTPDQYSKTPCGNFFLKSSLRKGLLPEILENLLSARKQ 150
              NL Y T+   Q     E+  +           +    R G+   I   L   R +
Sbjct: 75  RTWNLSYETVDIQQCKKPYEVKDE-----TGEVLHIVCMDRPGITAVITGLLRDFRVK 127


>d2py5a2 e.8.1.1 (A:188-575) phi29 DNA polymerase {Bacteriophage
           phi-29 [TaxId: 10756]}
          Length = 388

 Score = 51.4 bits (122), Expect = 7e-09
 Identities = 22/134 (16%), Positives = 38/134 (28%), Gaps = 29/134 (21%)

Query: 47  NFIIPTYHGGQGEDQFEGATVIEPKKGYYADPIATLDFSSLYPSIMMAHNLCYTTLLTPQ 106
             +   Y GG          + +  K          D +SLYP+ M +  L Y   +  +
Sbjct: 33  KEVRYAYRGGFTW-------LNDRFKEKEIGEGMVFDVNSLYPAQMYSRLLPYGEPIVFE 85

Query: 107 TITK----------------------LELTPDQYSKTPCGNFFLKSSLRKGLLPEILENL 144
                                     +     + S+   GN +LKSS  +     +    
Sbjct: 86  GKYVWDEDYPLHIQHIRCEFELKEGYIPTIQIKRSRFYKGNEYLKSSGGEIADLWLSNVD 145

Query: 145 LSARKQAKNDLKKE 158
           L   K+  +    E
Sbjct: 146 LELMKEHYDLYNVE 159


>d2bw3a2 c.55.3.12 (A:163-609) Transposase Hermes, catalytic domain
           {House fly (Musca domestica) [TaxId: 7370]}
          Length = 447

 Score = 26.9 bits (58), Expect = 1.3
 Identities = 6/30 (20%), Positives = 13/30 (43%)

Query: 127 FLKSSLRKGLLPEILENLLSARKQAKNDLK 156
            + +  R  +  + +++LL      KN  K
Sbjct: 418 NIITEKRNRIGQQTVDSLLFLNSFYKNFCK 447


  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
   0.318    0.135    0.402 

Gapped
Lambda     K      H
   0.267   0.0476    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 601,350
Number of extensions: 25823
Number of successful extensions: 51
Number of sequences better than 10.0: 1
Number of HSP's gapped: 45
Number of HSP's successfully gapped: 6
Length of query: 168
Length of database: 2,407,596
Length adjustment: 79
Effective length of query: 89
Effective length of database: 1,322,926
Effective search space: 117740414
Effective search space used: 117740414
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.7 bits)