RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy13254
         (132 letters)



>d1wb9a4 d.75.2.1 (A:2-116) DNA repair protein MutS, domain I
           {Escherichia coli [TaxId: 562]}
          Length = 115

 Score = 37.6 bits (87), Expect = 6e-05
 Identities = 12/62 (19%), Positives = 20/62 (32%), Gaps = 12/62 (19%)

Query: 1   NEYAHSGFPEISYGKFAQTLVEKGYKVARVEQTESAEQMDIRTKRDKVPQKQRVVRREIC 60
                +G P  +   +   LV +G  VA  EQ                   +  V R++ 
Sbjct: 63  EPIPMAGIPYHAVENYLAKLVNQGESVAICEQIGDPA------------TSKGPVERKVV 110

Query: 61  KI 62
           +I
Sbjct: 111 RI 112


>d1ewqa4 d.75.2.1 (A:1-120) DNA repair protein MutS, domain I
           {Thermus aquaticus [TaxId: 271]}
          Length = 120

 Score = 34.2 bits (78), Expect = 0.001
 Identities = 14/62 (22%), Positives = 31/62 (50%), Gaps = 12/62 (19%)

Query: 1   NEYAHSGFPEISYGKFAQTLVEKGYKVARVEQTESAEQMDIRTKRDKVPQKQRVVRREIC 60
                +G P  ++  +A+ L++ G+++A  +Q E AE            + + +VRRE+ 
Sbjct: 66  FTTPMAGIPLRAFEAYAERLLKMGFRLAVADQVEPAE------------EAEGLVRREVT 113

Query: 61  KI 62
           ++
Sbjct: 114 QL 115


>d1wb9a3 c.55.6.1 (A:117-269) DNA repair protein MutS, domain II
           {Escherichia coli [TaxId: 562]}
          Length = 153

 Score = 33.6 bits (76), Expect = 0.003
 Identities = 7/37 (18%), Positives = 15/37 (40%)

Query: 82  NKFLLGVTKEGDRLGVCFIDTTIGEFHVGEFEDDKQF 118
           +  L  + ++    G   +D + G F + E  D +  
Sbjct: 14  DNLLAAIWQDSKGFGYATLDISSGRFRLSEPADRETM 50


>d1ewqa3 c.55.6.1 (A:121-266) DNA repair protein MutS, domain II
           {Thermus aquaticus [TaxId: 271]}
          Length = 146

 Score = 33.1 bits (75), Expect = 0.004
 Identities = 9/38 (23%), Positives = 16/38 (42%), Gaps = 1/38 (2%)

Query: 81  DNKFLLGVTKEGDRLGVCFIDTTIGEFHVGEFEDDKQF 118
           +  +L  +   GD  G+ F+D + GEF     +     
Sbjct: 10  EANYLAAIA-TGDGWGLAFLDVSTGEFKGTVLKSKSAL 46


>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence
           recognition protein Ffh {Archaeon Acidianus ambivalens
           [TaxId: 2283]}
          Length = 211

 Score = 26.7 bits (58), Expect = 0.73
 Identities = 18/72 (25%), Positives = 31/72 (43%), Gaps = 4/72 (5%)

Query: 14  GKFAQTLVEKGYKVARVE----QTESAEQMDIRTKRDKVPQKQRVVRREICKITCRGAQT 69
           GK A    +KG+KV  V     +  + EQ+    ++  VP       +++  I  RG + 
Sbjct: 30  GKLAYFYKKKGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVEK 89

Query: 70  FSIMDVDANYVD 81
           F    ++   VD
Sbjct: 90  FLSEKMEIIIVD 101


>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal
          recognition particle receptor FtsY {Escherichia coli
          [TaxId: 562]}
          Length = 211

 Score = 25.4 bits (55), Expect = 2.2
 Identities = 12/72 (16%), Positives = 27/72 (37%), Gaps = 4/72 (5%)

Query: 14 GKFAQTLVEKGYKVARVE----QTESAEQMDIRTKRDKVPQKQRVVRREICKITCRGAQT 69
          GK A+   ++G  V        +  + EQ+ +  +R+ +P   +    +   +     Q 
Sbjct: 27 GKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDAIQA 86

Query: 70 FSIMDVDANYVD 81
              ++D    D
Sbjct: 87 AKARNIDVLIAD 98


>d2piaa1 b.43.4.2 (A:1-103) Phthalate dioxygenase reductase
          {Pseudomonas cepacia, db01 [TaxId: 292]}
          Length = 103

 Score = 24.3 bits (52), Expect = 3.3
 Identities = 8/51 (15%), Positives = 13/51 (25%), Gaps = 3/51 (5%)

Query: 50 QKQRVVRREICKIT---CRGAQTFSIMDVDANYVDNKFLLGVTKEGDRLGV 97
                RR          R     ++         +   +  T EGD + V
Sbjct: 48 AVPNGSRRTYSLCNDSQERNRYVIAVKRDSNGRGGSISFIDDTSEGDAVEV 98


>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal
           recognition particle receptor FtsY {Thermotoga maritima
           [TaxId: 2336]}
          Length = 213

 Score = 24.7 bits (53), Expect = 4.5
 Identities = 17/108 (15%), Positives = 32/108 (29%), Gaps = 11/108 (10%)

Query: 14  GKFAQTLVEKGYKVA----------RVEQTE-SAEQMDIRTKRDKVPQKQRVVRREICKI 62
           GK A+  V++G  V            +EQ +   E++               V  +    
Sbjct: 29  GKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDAVAH 88

Query: 63  TCRGAQTFSIMDVDANYVDNKFLLGVTKEGDRLGVCFIDTTIGEFHVG 110
                +   I+D        K L+   ++  R+    I     E  + 
Sbjct: 89  ALARNKDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLV 136


>d1w1we_ a.4.5.57 (E:) Sister chromatid cohesion protein 1 (SCC1),
          C-terminal domain {Baker's yeast (Saccharomyces
          cerevisiae) [TaxId: 4932]}
          Length = 79

 Score = 23.3 bits (50), Expect = 5.5
 Identities = 7/31 (22%), Positives = 10/31 (32%)

Query: 15 KFAQTLVEKGYKVARVEQTESAEQMDIRTKR 45
           F   L         + QTE+   + I  K 
Sbjct: 45 GFFDILSLATEGCIGLSQTEAFGNIKIDAKP 75


>d1pvda3 c.36.1.9 (A:361-556) Pyruvate decarboxylase {Baker's yeast
           (Saccharomyces cerevisiae) [TaxId: 4932]}
          Length = 196

 Score = 24.0 bits (51), Expect = 7.2
 Identities = 6/38 (15%), Positives = 13/38 (34%)

Query: 1   NEYAHSGFPEISYGKFAQTLVEKGYKVARVEQTESAEQ 38
            +  ++      +     T   K Y+  RV  T   ++
Sbjct: 123 PKAQYNEIQGWDHLSLLPTFGAKDYETHRVATTGEWDK 160


  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
   0.321    0.136    0.402 

Gapped
Lambda     K      H
   0.267   0.0537    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 465,958
Number of extensions: 18739
Number of successful extensions: 49
Number of sequences better than 10.0: 1
Number of HSP's gapped: 49
Number of HSP's successfully gapped: 11
Length of query: 132
Length of database: 2,407,596
Length adjustment: 76
Effective length of query: 56
Effective length of database: 1,364,116
Effective search space: 76390496
Effective search space used: 76390496
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: 48 (22.7 bits)