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= psy12830
         (94 letters)

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

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



>sp|P19387|RPB3_HUMAN DNA-directed RNA polymerase II subunit RPB3 OS=Homo sapiens
          GN=POLR2C PE=1 SV=2
          Length = 275

 Score = 48.9 bits (115), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 21/29 (72%), Positives = 27/29 (93%)

Query: 1  MPYANQPSVHITDLTDENVKFQVEDTELS 29
          MPYANQP+V IT+LTDENVKF +E+T+L+
Sbjct: 1  MPYANQPTVRITELTDENVKFIIENTDLA 29


>sp|Q3T0Q3|RPB3_BOVIN DNA-directed RNA polymerase II subunit RPB3 OS=Bos taurus
          GN=POLR2C PE=2 SV=1
          Length = 275

 Score = 48.9 bits (115), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 21/29 (72%), Positives = 27/29 (93%)

Query: 1  MPYANQPSVHITDLTDENVKFQVEDTELS 29
          MPYANQP+V IT+LTDENVKF +E+T+L+
Sbjct: 1  MPYANQPTVRITELTDENVKFIIENTDLA 29


>sp|P97760|RPB3_MOUSE DNA-directed RNA polymerase II subunit RPB3 OS=Mus musculus
          GN=Polr2c PE=2 SV=1
          Length = 275

 Score = 47.0 bits (110), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/29 (68%), Positives = 27/29 (93%)

Query: 1  MPYANQPSVHITDLTDENVKFQVEDTELS 29
          MPYANQP+V IT+LT+ENVKF +E+T+L+
Sbjct: 1  MPYANQPTVRITELTEENVKFIIENTDLA 29


  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
   0.317    0.132    0.411 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 35,341,573
Number of Sequences: 539616
Number of extensions: 1141694
Number of successful extensions: 2312
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 2309
Number of HSP's gapped (non-prelim): 3
length of query: 94
length of database: 191,569,459
effective HSP length: 64
effective length of query: 30
effective length of database: 157,034,035
effective search space: 4711021050
effective search space used: 4711021050
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)