RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12829
         (181 letters)



>d1twfc2 d.181.1.1 (C:42-172) RPB3 {Baker's yeast (Saccharomyces
           cerevisiae) [TaxId: 4932]}
          Length = 131

 Score =  151 bits (383), Expect = 2e-48
 Identities = 65/136 (47%), Positives = 86/136 (63%), Gaps = 5/136 (3%)

Query: 43  PTMAIDWVQLEANSTVLSDEFIASRIGLIPLTSDEVVDRILYSRDCTCVDFCSECSVEFT 102
           PT+AID V++E N+TVL+DEFIA R+GLIPL S ++ +++ YSRDC C D C +CSV  T
Sbjct: 1   PTLAIDSVEVETNTTVLADEFIAHRLGLIPLQSMDI-EQLEYSRDCFCEDHCDKCSVVLT 59

Query: 103 LDVKCVDDQTRHVTTADLKSTDARVVPVTSRNRDADMNEYGETDDILIVKLRKGQELRLR 162
           L      + T +V + DL         +  RN    + +  E + +LI KLRKGQEL+L 
Sbjct: 60  LQAFGESESTTNVYSKDLVIVS----NLMGRNIGHPIIQDKEGNGVLICKLRKGQELKLT 115

Query: 163 AYAKKGFGKEHAKWNP 178
             AKKG  KEHAKW P
Sbjct: 116 CVAKKGIAKEHAKWGP 131


>d1twfc1 d.74.3.1 (C:3-41,C:173-268) RPB3 {Baker's yeast
          (Saccharomyces cerevisiae) [TaxId: 4932]}
          Length = 135

 Score = 52.1 bits (125), Expect = 9e-10
 Identities = 17/43 (39%), Positives = 25/43 (58%)

Query: 6  QPSVHITDLTDENVKFQVEDTELSVANSLRRVFIAETPTMAID 48
           P V I + + +NV F + + +L++ANSLRRV IAE       
Sbjct: 3  GPQVKIREASKDNVDFILSNVDLAMANSLRRVMIAEIAAAIEF 45


>d1smya1 d.74.3.1 (A:1-49,A:173-229) RNA polymerase alpha {Thermus
          thermophilus [TaxId: 274]}
          Length = 106

 Score = 29.1 bits (65), Expect = 0.11
 Identities = 12/54 (22%), Positives = 23/54 (42%), Gaps = 4/54 (7%)

Query: 4  ANQPSVHITDLTDENVKFQVEDTE----LSVANSLRRVFIAETPTMAIDWVQLE 53
             P   +     E  +F +E  E    +++ N LRR+ ++  P +     Q+E
Sbjct: 6  LKAPVFTVRTQGREYGEFVLEPLERGFGVTLGNPLRRILLSSIPPVRRVAFQVE 59


  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    0.132    0.386 

Gapped
Lambda     K      H
   0.267   0.0590    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 644,184
Number of extensions: 27527
Number of successful extensions: 63
Number of sequences better than 10.0: 1
Number of HSP's gapped: 61
Number of HSP's successfully gapped: 5
Length of query: 181
Length of database: 2,407,596
Length adjustment: 80
Effective length of query: 101
Effective length of database: 1,309,196
Effective search space: 132228796
Effective search space used: 132228796
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 (23.3 bits)