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= 034030
         (105 letters)

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

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



>sp|Q02854|NUXM_NEUCR NADH-ubiquinone oxidoreductase 21 kDa subunit OS=Neurospora crassa
           (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257
           / FGSC 987) GN=nuo-21 PE=1 SV=1
          Length = 189

 Score = 40.8 bits (94), Expect = 0.002,   Method: Compositional matrix adjust.
 Identities = 30/97 (30%), Positives = 42/97 (43%), Gaps = 6/97 (6%)

Query: 5   ITASEKPQYPVIDRNPPFTAVVGNFNTLDYLRFSSITGVSVVVGYL------SGIKPGLK 58
           I+ +    YP+ID +P F  V+G     DY+  +        + YL      SG+  G  
Sbjct: 11  ISKTLNTNYPLIDNDPHFRRVIGYARPSDYVHGTVAGAAGPGLLYLMEKMAPSGVGKGGF 70

Query: 59  GPSMVTGGLIGLMGGFMYAYQNSAGRLMGFFPNEGEV 95
             +M     +G  GGF+Y YQ S  R  G   N  EV
Sbjct: 71  PKAMRLATAVGFFGGFLYFYQRSILRFYGMSENAREV 107


>sp|Q8VC34|RPAP2_MOUSE Putative RNA polymerase II subunit B1 CTD phosphatase Rpap2 OS=Mus
           musculus GN=Rpap2 PE=2 SV=2
          Length = 614

 Score = 30.4 bits (67), Expect = 3.0,   Method: Composition-based stats.
 Identities = 20/68 (29%), Positives = 35/68 (51%), Gaps = 8/68 (11%)

Query: 1   MNTDITASEKPQYPVIDRNPPFTAVVGNFNTLDYLRFSSITGVSVVVGYLSGIKPGLKGP 60
           +N D T S+  +  V+ R+P F  +  + ++ + +R        +V+  LS + PGL GP
Sbjct: 474 LNEDTTKSQDSKESVLQRDPSFPLI--DSSSQNQIR------RRIVLEKLSKVLPGLLGP 525

Query: 61  SMVTGGLI 68
             +T G I
Sbjct: 526 LQITMGDI 533


  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
   0.319    0.140    0.413 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 42,408,752
Number of Sequences: 539616
Number of extensions: 1667523
Number of successful extensions: 3810
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 3796
Number of HSP's gapped (non-prelim): 19
length of query: 105
length of database: 191,569,459
effective HSP length: 74
effective length of query: 31
effective length of database: 151,637,875
effective search space: 4700774125
effective search space used: 4700774125
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)