RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy9436
         (188 letters)



>d1j3aa_ c.21.1.1 (A:) Ribosomal protein L13 {Archaeon Pyrococcus
           horikoshii [TaxId: 53953]}
          Length = 142

 Score = 68.1 bits (166), Expect = 1e-15
 Identities = 32/108 (29%), Positives = 48/108 (44%), Gaps = 2/108 (1%)

Query: 20  KTTSTKRNIGHFDRKRKQARHESKIRAVEKLELFSIENARNQSESMTPHKLDRGAKALKR 79
             T  +  I    ++R   R  +  R        S E  R     M P K DRG KA +R
Sbjct: 37  VITGNREVIFSKYKQRTGLRTLTNPRRGPFYPKRSDEIVRRTIRGMLPWKTDRGRKAFRR 96

Query: 80  LKVYEGIPPKYARRQRLCVPTALRTVCLKPGRSYCSVGRISHEVGWKY 127
           LKVY GIP ++  +Q   +  A  +   +P   Y +VG ++  +G K+
Sbjct: 97  LKVYVGIPKEFQDKQLETIVEAHVSRLSRP--KYVTVGEVAKFLGGKF 142


>d1vqoj1 c.21.1.1 (J:4-145) Ribosomal protein L13 {Archaeon
           Haloarcula marismortui [TaxId: 2238]}
          Length = 142

 Score = 54.5 bits (131), Expect = 2e-10
 Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 5/62 (8%)

Query: 65  MTPHKLDRGAKALKRLKVYEGIPPKYARRQRLCVPTALRTVCLKPGRSYCSVGRISHEVG 124
           M PHK  RG +A + ++VY G P  Y     +   T+L  +       + ++G IS  +G
Sbjct: 83  MLPHKKQRGREAFESVRVYLGNP--YDEDGEVLDGTSLDRL---SNIKFVTLGEISETLG 137

Query: 125 WK 126
             
Sbjct: 138 AN 139


>d2j01n1 c.21.1.1 (N:1-139) Ribosomal protein L13 {Thermus
           thermophilus [TaxId: 274]}
          Length = 139

 Score = 31.2 bits (70), Expect = 0.032
 Identities = 16/75 (21%), Positives = 25/75 (33%), Gaps = 1/75 (1%)

Query: 20  KTTSTKRNIGHFDRKRKQARHESKIRAVEKLELFSIENARNQSESMTPHKLDRGAKALKR 79
           + T  K     + R         KI   + L         +  + M P     G +  KR
Sbjct: 61  RVTGKKLEQKIYTRYSGYPGGLKKIPLEKMLATHPERVLEHAVKGMLPKGP-LGRRLFKR 119

Query: 80  LKVYEGIPPKYARRQ 94
           LKVY G    +  ++
Sbjct: 120 LKVYAGPDHPHQAQR 134


>d2gych1 c.21.1.1 (H:1-140) Ribosomal protein L13 {Escherichia coli
           [TaxId: 562]}
          Length = 140

 Score = 30.7 bits (69), Expect = 0.045
 Identities = 14/76 (18%), Positives = 22/76 (28%), Gaps = 1/76 (1%)

Query: 19  EKTTSTKRNIGHFDRKRKQARHESKIRAVEKLELFSIENARNQSESMTPHKLDRGAKALK 78
              T  KR    +           +    E +            + M P     G    +
Sbjct: 62  VAVTGNKRTDKVYYHHTGHIGGIKQATFEEMIARRPERVIEIAVKGMLPKGP-LGRAMFR 120

Query: 79  RLKVYEGIPPKYARRQ 94
           +LKVY G    +A +Q
Sbjct: 121 KLKVYAGNEHNHAAQQ 136


>d2zjrg1 c.21.1.1 (G:30-171) Ribosomal protein L13 {Deinococcus
           radiodurans [TaxId: 1299]}
          Length = 142

 Score = 30.0 bits (67), Expect = 0.083
 Identities = 15/75 (20%), Positives = 23/75 (30%), Gaps = 1/75 (1%)

Query: 20  KTTSTKRNIGHFDRKRKQARHESKIRAVEKLELFSIENARNQSESMTPHKLDRGAKALKR 79
             T  K +   + R            A E L         +    M P    +G     R
Sbjct: 60  ALTGKKLDDKVYTRYTGYQGGLKTETAREALSKHPERVIEHAVFGMLPKGR-QGRAMHTR 118

Query: 80  LKVYEGIPPKYARRQ 94
           LKVY G    ++ ++
Sbjct: 119 LKVYAGETHPHSAQK 133


>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein
           MetN {Escherichia coli [TaxId: 562]}
          Length = 240

 Score = 25.2 bits (55), Expect = 5.0
 Identities = 11/53 (20%), Positives = 17/53 (32%), Gaps = 4/53 (7%)

Query: 23  STKRNIGHFDRKRKQARHESKIRAVEKLELFSIENARNQSESMTPHKLDRGAK 75
           +   N+          + E K R  E L L  + +  +      P  L  G K
Sbjct: 98  TVFGNVALPLELDNTPKDEVKRRVTELLSLVGLGDKHDSY----PSNLSGGQK 146


  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    0.132    0.382 

Gapped
Lambda     K      H
   0.267   0.0606    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 642,765
Number of extensions: 28463
Number of successful extensions: 59
Number of sequences better than 10.0: 1
Number of HSP's gapped: 57
Number of HSP's successfully gapped: 12
Length of query: 188
Length of database: 2,407,596
Length adjustment: 80
Effective length of query: 108
Effective length of database: 1,309,196
Effective search space: 141393168
Effective search space used: 141393168
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: 50 (23.3 bits)