RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= 027754
         (219 letters)



>d2j01d1 b.34.5.3 (D:127-273) C-terminal domain of ribosomal protein
           L2 {Thermus thermophilus [TaxId: 274]}
          Length = 147

 Score =  140 bits (355), Expect = 2e-43
 Identities = 71/144 (49%), Positives = 92/144 (63%), Gaps = 6/144 (4%)

Query: 70  IGSCMPLACMRIGTIIHNIEVNPGQGGKLVRAAGTSAKILKEPTSSFCLVRLPSGNEKLI 129
           +G+ +PL  + +GT++H +E+ P +G KL RAAGTSA+I       + ++RLPSG  + +
Sbjct: 1   VGNALPLRFIPVGTVVHAVELEPKKGAKLARAAGTSAQIQGR-EGDYVILRLPSGELRKV 59

Query: 130 DTRCRATIGTVSNPSHGAKKLRKAGQSRWLGRRPVVRGVAMNPVDHPHGGGEGRSKSSGN 189
              C AT+G V N  H    L KAG+SRWLGRRP VRG AMNPVDHPHGGGEGR+     
Sbjct: 60  HGECYATVGAVGNADHKNIVLGKAGRSRWLGRRPHVRGAAMNPVDHPHGGGEGRAP---- 115

Query: 190 HGRCSLTPWGKPCKSGYKTASPKK 213
            GR   +PWG   K G KT   +K
Sbjct: 116 RGRPPASPWGWQTK-GLKTRKRRK 138


>d1vqoa1 b.34.5.3 (A:91-237) C-terminal domain of ribosomal protein
           L2 {Archaeon Haloarcula marismortui [TaxId: 2238]}
          Length = 147

 Score =  140 bits (355), Expect = 3e-43
 Identities = 52/138 (37%), Positives = 71/138 (51%), Gaps = 7/138 (5%)

Query: 71  GSCMPLACMRIGTIIHNIEVNPGQGGKLVRAAGTSAKILKEPTSSFCLVRLPSGNEKLID 130
           G+ +PLA +  G  + N+E +PG GGK  RA+G +A++L     +  +V+LPSG  K +D
Sbjct: 1   GNTLPLAEIPEGVPVCNVESSPGDGGKFARASGVNAQLLTH-DRNVAVVKLPSGEMKRLD 59

Query: 131 TRCRATIGTVSNPSHGAKKLRKAGQSRWL-----GRRPVVRGVAMNPVDHPHGGGEGRSK 185
            +CRATIG V+      K   KAG           + P VRGVAMN VDHP GGG  +  
Sbjct: 60  PQCRATIGVVAGGGRTDKPFVKAGNKHHKMKARGTKWPNVRGVAMNAVDHPFGGGGRQHP 119

Query: 186 SSGNHGRCSLTPWGKPCK 203
                      P G+   
Sbjct: 120 GKP-KSISRNAPPGRKVG 136


>d2qamc1 b.34.5.3 (C:125-269) C-terminal domain of ribosomal protein
           L2 {Escherichia coli [TaxId: 562]}
          Length = 145

 Score =  135 bits (342), Expect = 2e-41
 Identities = 67/147 (45%), Positives = 94/147 (63%), Gaps = 7/147 (4%)

Query: 71  GSCMPLACMRIGTIIHNIEVNPGQGGKLVRAAGTSAKILKEPTSSFCLVRLPSGNEKLID 130
           G+ +P+  + +G+ +HN+E+ PG+GG+L R+AGT  +I+     ++  +RL SG  + ++
Sbjct: 2   GNTLPMRNIPVGSTVHNVEMKPGKGGQLARSAGTYVQIVAR-DGAYVTLRLRSGEMRKVE 60

Query: 131 TRCRATIGTVSNPSHGAKKLRKAGQSRWLGRRPVVRGVAMNPVDHPHGGGEGRSKSSGNH 190
             CRAT+G V N  H  + L KAG +RW G RP VRG AMNPVDHPHGGGEGR+      
Sbjct: 61  ADCRATLGEVGNAEHMLRVLGKAGAARWRGVRPTVRGTAMNPVDHPHGGGEGRN-----F 115

Query: 191 GRCSLTPWGKPCKSGYKTASPKKKKKL 217
           G+  +TPWG   K G KT S K+  K 
Sbjct: 116 GKHPVTPWGVQTK-GKKTRSNKRTDKF 141


>d1rl2a1 b.34.5.3 (A:126-195) C-terminal domain of ribosomal protein
           L2 {Bacillus stearothermophilus [TaxId: 1422]}
          Length = 70

 Score = 80.2 bits (198), Expect = 1e-20
 Identities = 35/70 (50%), Positives = 53/70 (75%), Gaps = 1/70 (1%)

Query: 71  GSCMPLACMRIGTIIHNIEVNPGQGGKLVRAAGTSAKILKEPTSSFCLVRLPSGNEKLID 130
           G+ +PL  + +GT++HNIE+ PG+GG+LVRAAGTSA++L +    + +VRL SG  ++I 
Sbjct: 1   GNALPLENIPVGTLVHNIELKPGRGGQLVRAAGTSAQVLGK-EGKYVIVRLASGEVRMIL 59

Query: 131 TRCRATIGTV 140
            +CRAT+G V
Sbjct: 60  GKCRATVGEV 69


>d1u2wa1 a.4.5.5 (A:12-119) Cadmium efflux system accessory protein
           CadC {Staphylococcus aureus [TaxId: 1280]}
          Length = 108

 Score = 24.4 bits (53), Expect = 7.6
 Identities = 12/58 (20%), Positives = 20/58 (34%), Gaps = 2/58 (3%)

Query: 107 KILKEPTSSFCLVRLPSGNEKLIDTRCRATIGTVSNPSHGAKKLRKAG--QSRWLGRR 162
           K + +   +     L    E  +         T++N SH  + L K G    R  G+ 
Sbjct: 26  KAIADENRAKITYALCQDEELCVCDIANILGVTIANASHHLRTLYKQGVVNFRKEGKL 83


>d1oe4a_ c.18.1.3 (A:) Single-strand selective monofunctional
           uracil-DNA glycosylase SMUG1 {African clawed frog
           (Xenopus laevis) [TaxId: 8355]}
          Length = 245

 Score = 24.8 bits (54), Expect = 7.6
 Identities = 13/56 (23%), Positives = 20/56 (35%), Gaps = 2/56 (3%)

Query: 125 NEKLIDTRCRATIGTVSNPSHGAKKLRKAGQSRWLGRRPVVRGVAMNPVDHPHGGG 180
           N KL +   +  +  V NP   A    +     +   +  V  + MNP   P G  
Sbjct: 15  NLKLSNLVFQDPVQYVYNPLVYAWAPHENYVQTYCKSKKEVLFLGMNP--GPFGMA 68


  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
   0.316    0.131    0.397 

Gapped
Lambda     K      H
   0.267   0.0608    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 798,301
Number of extensions: 35541
Number of successful extensions: 65
Number of sequences better than 10.0: 1
Number of HSP's gapped: 57
Number of HSP's successfully gapped: 7
Length of query: 219
Length of database: 2,407,596
Length adjustment: 82
Effective length of query: 137
Effective length of database: 1,281,736
Effective search space: 175597832
Effective search space used: 175597832
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 (21.6 bits)
S2: 51 (23.7 bits)