BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 035423
         (35 letters)

Database: swissprot 
           539,616 sequences; 191,569,459 total letters

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



>sp|P48011|RPAB4_SCHPO DNA-directed RNA polymerases I, II, and III subunit RPABC4
          OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843)
          GN=rpc10 PE=1 SV=2
          Length = 63

 Score = 50.1 bits (118), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 20/33 (60%), Positives = 30/33 (90%)

Query: 3  NTLKPGDVIQCRECGYRILYKKRTRRIVQYEAR 35
          NT++  +VI+CRECG+R++YK RT+R+VQ+EAR
Sbjct: 31 NTIQAKEVIRCRECGHRVMYKMRTKRMVQFEAR 63


>sp|Q63871|RPAB4_MOUSE DNA-directed RNA polymerases I, II, and III subunit RPABC4 OS=Mus
          musculus GN=Polr2k PE=2 SV=2
          Length = 58

 Score = 49.7 bits (117), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 22/34 (64%), Positives = 29/34 (85%)

Query: 2  ENTLKPGDVIQCRECGYRILYKKRTRRIVQYEAR 35
          EN +K  D I+CRECGYRI+YKKRT+R+V ++AR
Sbjct: 25 ENEIKSRDPIRCRECGYRIMYKKRTKRLVVFDAR 58


>sp|P53803|RPAB4_HUMAN DNA-directed RNA polymerases I, II, and III subunit RPABC4
          OS=Homo sapiens GN=POLR2K PE=2 SV=1
          Length = 58

 Score = 49.7 bits (117), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 22/34 (64%), Positives = 29/34 (85%)

Query: 2  ENTLKPGDVIQCRECGYRILYKKRTRRIVQYEAR 35
          EN +K  D I+CRECGYRI+YKKRT+R+V ++AR
Sbjct: 25 ENEIKSRDPIRCRECGYRIMYKKRTKRLVVFDAR 58


>sp|Q3ZBC0|RPAB4_BOVIN DNA-directed RNA polymerases I, II, and III subunit RPABC4 OS=Bos
          taurus GN=POLR2K PE=3 SV=1
          Length = 58

 Score = 49.7 bits (117), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 22/34 (64%), Positives = 29/34 (85%)

Query: 2  ENTLKPGDVIQCRECGYRILYKKRTRRIVQYEAR 35
          EN +K  D I+CRECGYRI+YKKRT+R+V ++AR
Sbjct: 25 ENEIKSRDPIRCRECGYRIMYKKRTKRLVVFDAR 58


>sp|P40422|RPAB4_YEAST DNA-directed RNA polymerases I, II, and III subunit RPABC4
          OS=Saccharomyces cerevisiae (strain ATCC 204508 /
          S288c) GN=RPC10 PE=1 SV=1
          Length = 70

 Score = 44.7 bits (104), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 17/32 (53%), Positives = 26/32 (81%)

Query: 4  TLKPGDVIQCRECGYRILYKKRTRRIVQYEAR 35
          +L   D ++C++CG+RIL K RT+R+VQ+EAR
Sbjct: 39 SLSRTDAVRCKDCGHRILLKARTKRLVQFEAR 70


>sp|Q54R66|RPAB4_DICDI DNA-directed RNA polymerases I, II, and III subunit rpabc4
          OS=Dictyostelium discoideum GN=polr2k PE=3 SV=1
          Length = 46

 Score = 44.3 bits (103), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 16/34 (47%), Positives = 29/34 (85%)

Query: 2  ENTLKPGDVIQCRECGYRILYKKRTRRIVQYEAR 35
          E+ +KP + ++C++C +RI+YKKRT +++Q+EAR
Sbjct: 13 EHEIKPKEPVKCKDCTHRIMYKKRTDKMIQFEAR 46


  Database: swissprot
    Posted date:  Mar 23, 2013  2:32 AM
  Number of letters in database: 191,569,459
  Number of sequences in database:  539,616
  
Lambda     K      H
   0.327    0.142    0.433 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,254,501
Number of Sequences: 539616
Number of extensions: 217699
Number of successful extensions: 923
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 917
Number of HSP's gapped (non-prelim): 6
length of query: 35
length of database: 191,569,459
effective HSP length: 9
effective length of query: 26
effective length of database: 186,712,915
effective search space: 4854535790
effective search space used: 4854535790
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 55 (25.8 bits)