RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy6706
         (119 letters)



>d1co6a_ a.3.1.1 (A:) Cytochrome c2 {Rhodopseudomonas viridis
          [TaxId: 1079]}
          Length = 107

 Score = 26.1 bits (57), Expect = 0.66
 Identities = 11/46 (23%), Positives = 17/46 (36%), Gaps = 3/46 (6%)

Query: 11 GSRLF-SCAACDTILTNRRELISTRFTGATGRAFLFHRVVNLNYSD 55
          G ++F  C  C +I    +  +     G  GR      +    YSD
Sbjct: 6  GEQVFKQCLVCHSIGPGAKNKVGPVLNGLFGRH--SGTIEGFAYSD 49


>d1jixa_ c.87.1.1 (A:) beta-Glucosyltransferase (DNA-modifying)
           {Bacteriophage T4 [TaxId: 10665]}
          Length = 351

 Score = 26.2 bits (57), Expect = 1.1
 Identities = 23/77 (29%), Positives = 33/77 (42%), Gaps = 11/77 (14%)

Query: 13  RLFSCAACDTIL-------TNRRELISTRFTGATGRAFLFHRVVNLNYSDVQDRVMLTGR 65
           R++   A D ++       T  R +   RF     RA L  RV  L +SDV  + ML+ +
Sbjct: 269 RVWETMASDAVMLIDEEFDTKHRIINDARFY-VNNRAELIDRVNELKHSDVLRKEMLSIQ 327

Query: 66  HMVRDVSCKNCNTKLGW 82
           H   D+  K    K  W
Sbjct: 328 H---DILNKTRAKKAEW 341


>d1ccra_ a.3.1.1 (A:) Mitochondrial cytochrome c {Rice embryos
          (Oryza sativa) [TaxId: 4530]}
          Length = 111

 Score = 25.4 bits (55), Expect = 1.1
 Identities = 9/33 (27%), Positives = 12/33 (36%), Gaps = 2/33 (6%)

Query: 11 GSRLF--SCAACDTILTNRRELISTRFTGATGR 41
          G ++F   CA C T+             G  GR
Sbjct: 14 GEKIFKTKCAQCHTVDKGAGHKQGPNLNGLFGR 46


>d1jdla_ a.3.1.1 (A:) Cytochrome c2 {Rhodospirillum centenum
          [TaxId: 34018]}
          Length = 118

 Score = 25.4 bits (55), Expect = 1.2
 Identities = 12/47 (25%), Positives = 18/47 (38%), Gaps = 3/47 (6%)

Query: 11 GSRLF-SCAACDTILTNRRELISTRFTGATGRAFLFHRVVNLNYSDV 56
          G  +F  C AC  +  + + L+    TG   R          NYS +
Sbjct: 6  GEAVFKKCMACHRVGPDAKNLVGPALTGVIDRQ--AGTAPGFNYSAI 50


>d1xm0a1 b.88.1.3 (A:1-143) Peptide methionine sulfoxide reductase
           MsrB {Bacillus subtilis [TaxId: 1423]}
          Length = 143

 Score = 25.6 bits (56), Expect = 1.4
 Identities = 7/44 (15%), Positives = 19/44 (43%), Gaps = 1/44 (2%)

Query: 52  NYSDVQDRVMLTGRHMVRDVSCKNCNTKLGWVYEFALEET-QRY 94
              +V++++  +   +  +V  +  ++ LG V+         RY
Sbjct: 71  IEEEVEEKLDTSHGMIRTEVRSRTADSHLGHVFNDGPGPNGLRY 114


>d1ycca_ a.3.1.1 (A:) Mitochondrial cytochrome c {Baker's yeast
          (Saccharomyces cerevisiae) [TaxId: 4932]}
          Length = 108

 Score = 25.4 bits (55), Expect = 1.4
 Identities = 9/34 (26%), Positives = 12/34 (35%), Gaps = 2/34 (5%)

Query: 11 GSRLFS--CAACDTILTNRRELISTRFTGATGRA 42
          G+ LF   C  C T+       +     G  GR 
Sbjct: 11 GATLFKTRCLQCHTVEKGGPHKVGPNLHGIFGRH 44


>d1lfma_ a.3.1.1 (A:) Mitochondrial cytochrome c {Bluefin tuna
          (Thunnus thynnus) [TaxId: 8237]}
          Length = 103

 Score = 24.8 bits (53), Expect = 1.8
 Identities = 9/38 (23%), Positives = 13/38 (34%), Gaps = 2/38 (5%)

Query: 11 GSRLFS--CAACDTILTNRRELISTRFTGATGRAFLFH 46
          G + F   CA C T+    +  +     G  GR     
Sbjct: 6  GKKTFVQKCAQCHTVENGGKHKVGPNLWGLFGRKTGQA 43


>d1e7la2 d.4.1.5 (A:1-103) Recombination endonuclease VII,
          N-terminal domain {Bacteriophage T4 [TaxId: 10665]}
          Length = 103

 Score = 23.8 bits (51), Expect = 3.9
 Identities = 7/29 (24%), Positives = 12/29 (41%), Gaps = 2/29 (6%)

Query: 55 DVQDRVMLTGRHMVRDVSCKNCNTKLGWV 83
          D +      G+  VR + C  C+   G +
Sbjct: 42 DHELNGPKAGK--VRGLLCNLCDAAEGQM 68


>d3c2ca_ a.3.1.1 (A:) Cytochrome c2 {Rhodospirillum rubrum [TaxId:
          1085]}
          Length = 112

 Score = 23.6 bits (50), Expect = 5.0
 Identities = 6/32 (18%), Positives = 9/32 (28%), Gaps = 1/32 (3%)

Query: 11 GSRLFS-CAACDTILTNRRELISTRFTGATGR 41
          G ++   C AC T        +     G    
Sbjct: 7  GEKVSKKCLACHTFDQGGANKVGPNLFGVFEN 38


>d1l1da_ b.88.1.3 (A:) C-terminal MsrB domain of peptide methionine
           sulfoxide reductase PilB {Neisseria gonorrhoeae [TaxId:
           485]}
          Length = 144

 Score = 23.8 bits (51), Expect = 5.8
 Identities = 6/40 (15%), Positives = 14/40 (35%), Gaps = 2/40 (5%)

Query: 57  QDRVMLTGRHMVRDVSCKNCNTKLGWVYEFALEET--QRY 94
            +    +      +V  +  ++ LG V+     +    RY
Sbjct: 78  TEHDDFSFNMRRTEVRSRAADSHLGHVFPDGPRDKGGLRY 117


>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export
           ATP-binding/permease protein SAV1866 {Staphylococcus
           aureus [TaxId: 1280]}
          Length = 255

 Score = 23.6 bits (51), Expect = 8.9
 Identities = 5/18 (27%), Positives = 9/18 (50%)

Query: 98  RVILERALVTESDVKILD 115
           R+ + R  +    + ILD
Sbjct: 162 RLSIARIFLNNPPILILD 179


  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
   0.326    0.139    0.417 

Gapped
Lambda     K      H
   0.267   0.0503    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 446,542
Number of extensions: 18621
Number of successful extensions: 69
Number of sequences better than 10.0: 1
Number of HSP's gapped: 69
Number of HSP's successfully gapped: 13
Length of query: 119
Length of database: 2,407,596
Length adjustment: 74
Effective length of query: 45
Effective length of database: 1,391,576
Effective search space: 62620920
Effective search space used: 62620920
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 47 (22.4 bits)