RPS-BLAST 2.2.26 [Sep-21-2011]

Database: pdb70 
           27,921 sequences; 6,701,793 total letters

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

Query= psy12830
         (94 letters)



>3h0g_C DNA-directed RNA polymerase II subunit RPB3; transcription,
          multi-protein complex, DNA- binding, magnesium; 3.65A
          {Schizosaccharomyces pombe}
          Length = 297

 Score = 28.3 bits (62), Expect = 0.33
 Identities = 5/25 (20%), Positives = 15/25 (60%)

Query: 5  NQPSVHITDLTDENVKFQVEDTELS 29
          ++  + I +++  +V F + +T L+
Sbjct: 3  SETHITIRNISKNSVDFVLTNTSLA 27


>1twf_C B44.5, DNA-directed RNA polymerase II 45 kDa polypeptide;
          transcription, mRNA, multiprotein complex; HET: UTP;
          2.30A {Saccharomyces cerevisiae} SCOP: d.74.3.1
          d.181.1.1 PDB: 1i3q_C 1i6h_C 1k83_C* 1nik_C 1nt9_C
          1pqv_C 1r5u_C 1r9s_C* 1r9t_C* 1sfo_C* 1twa_C* 1twc_C*
          1i50_C* 1twg_C* 1twh_C* 1wcm_C 1y1v_C 1y1w_C 1y1y_C
          1y77_C* ...
          Length = 318

 Score = 26.5 bits (57), Expect = 1.3
 Identities = 7/24 (29%), Positives = 14/24 (58%)

Query: 6  QPSVHITDLTDENVKFQVEDTELS 29
           P V I + + +NV F + + +L+
Sbjct: 5  GPQVKIREASKDNVDFILSNVDLA 28


>3ttq_A Dextransucrase; (beta/alpha)8 barrel, transferase; HET: PG4; 1.90A
           {Leuconostoc mesenteroides} PDB: 3tto_A*
          Length = 1108

 Score = 25.0 bits (54), Expect = 5.5
 Identities = 6/33 (18%), Positives = 11/33 (33%)

Query: 3   YANQPSVHITDLTDENVKFQVEDTELSKRTNGN 35
           + NQ    +   T + +     D   +  TN  
Sbjct: 731 HKNQKYRAVILTTRDGLATFNSDQAPTAWTNDQ 763


  Database: pdb70
    Posted date:  Sep 4, 2012  3:40 AM
  Number of letters in database: 6,701,793
  Number of sequences in database:  27,921
  
Lambda     K      H
   0.317    0.132    0.411 

Gapped
Lambda     K      H
   0.267   0.0534    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,301,390
Number of extensions: 57354
Number of successful extensions: 129
Number of sequences better than 10.0: 1
Number of HSP's gapped: 129
Number of HSP's successfully gapped: 3
Length of query: 94
Length of database: 6,701,793
Length adjustment: 61
Effective length of query: 33
Effective length of database: 4,998,612
Effective search space: 164954196
Effective search space used: 164954196
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: 51 (23.9 bits)