FASTA searches a protein or DNA sequence data bank 36.3.4 Apr, 2011
Please cite:
W.R. Pearson & D.J. Lipman PNAS (1988) 85:2444-2448

Query: pF1KB0989, 135 aa
  1>>>pF1KB0989 135 - 135 aa - 135 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 5.6950+/-0.000234; mu= 12.6870+/- 0.015
 mean_var=115.0654+/-23.013, 0's: 0 Z-trim(125.4): 22  B-trim: 425 in 1/54
 Lambda= 0.119564
 statistics sampled from 49138 (49165) to 49138 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.865), E-opt: 0.2 (0.576), width:  16
 Scan time:  5.950

The best scores are:                                      opt bits E(85289)
NP_689781 (OMIM: 610772) homeobox protein Nkx-6.3  ( 135)  944 171.6 3.4e-43
XP_016868632 (OMIM: 610772) PREDICTED: homeobox pr ( 265)  551 104.1 1.4e-22
NP_006159 (OMIM: 602563) homeobox protein Nkx-6.1  ( 367)  246 51.7 1.2e-06
XP_016872278 (OMIM: 605955) PREDICTED: homeobox pr ( 277)  244 51.2 1.2e-06
NP_796374 (OMIM: 605955) homeobox protein Nkx-6.2  ( 277)  241 50.7 1.8e-06


>>NP_689781 (OMIM: 610772) homeobox protein Nkx-6.3 [Hom  (135 aa)
 initn: 944 init1: 944 opt: 944  Z-score: 896.5  bits: 171.6 E(85289): 3.4e-43
Smith-Waterman score: 944; 100.0% identity (100.0% similar) in 135 aa overlap (1-135:1-135)

               10        20        30        40        50        60
pF1KB0 MQQGQLAPGSRLCSGPWGLPELQPAAPSSSAAQLPWGESWGEEADTPACLSASGVWFQNR
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_689 MQQGQLAPGSRLCSGPWGLPELQPAAPSSSAAQLPWGESWGEEADTPACLSASGVWFQNR
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KB0 RTKWRKKSALEPSSSTPRAPGGAGAGAGGDRAPSENEDDEYNKPLDPDSDDEKIRLLLRK
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_689 RTKWRKKSALEPSSSTPRAPGGAGAGAGGDRAPSENEDDEYNKPLDPDSDDEKIRLLLRK
               70        80        90       100       110       120

              130     
pF1KB0 HRAAFSVLSLGAHSV
       :::::::::::::::
NP_689 HRAAFSVLSLGAHSV
              130     

>>XP_016868632 (OMIM: 610772) PREDICTED: homeobox protei  (265 aa)
 initn: 573 init1: 551 opt: 551  Z-score: 526.5  bits: 104.1 E(85289): 1.4e-22
Smith-Waterman score: 551; 100.0% identity (100.0% similar) in 81 aa overlap (55-135:185-265)

           30        40        50        60        70        80    
pF1KB0 AAPSSSAAQLPWGESWGEEADTPACLSASGVWFQNRRTKWRKKSALEPSSSTPRAPGGAG
                                     ::::::::::::::::::::::::::::::
XP_016 EKTFEQTKYLAGPERARLAYSLGMTESQVKVWFQNRRTKWRKKSALEPSSSTPRAPGGAG
          160       170       180       190       200       210    

           90       100       110       120       130     
pF1KB0 AGAGGDRAPSENEDDEYNKPLDPDSDDEKIRLLLRKHRAAFSVLSLGAHSV
       :::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 AGAGGDRAPSENEDDEYNKPLDPDSDDEKIRLLLRKHRAAFSVLSLGAHSV
          220       230       240       250       260     

>>NP_006159 (OMIM: 602563) homeobox protein Nkx-6.1 [Hom  (367 aa)
 initn: 294 init1: 149 opt: 246  Z-score: 240.4  bits: 51.7 E(85289): 1.2e-06
Smith-Waterman score: 246; 52.9% identity (77.1% similar) in 70 aa overlap (55-124:282-349)

           30        40        50        60        70        80    
pF1KB0 AAPSSSAAQLPWGESWGEEADTPACLSASGVWFQNRRTKWRKKSALEPSSSTPRAPGGAG
                                     ::::::::::::: : : ...  .  . . 
NP_006 EKTFEQTKYLAGPERARLAYSLGMTESQVKVWFQNRRTKWRKKHAAEMATAKKKQDSETE
             260       270       280       290       300       310 

           90       100       110       120       130            
pF1KB0 AGAGGDRAPSENEDDEYNKPLDPDSDDEKIRLLLRKHRAAFSVLSLGAHSV       
          :...  .:.:::.:::::::.::::::  ::.::...                  
NP_006 RLKGASE--NEEEDDDYNKPLDPNSDDEKITQLLKKHKSSSGGGGGLLLHASEPESSS
               320       330       340       350       360       

>>XP_016872278 (OMIM: 605955) PREDICTED: homeobox protei  (277 aa)
 initn: 297 init1: 141 opt: 244  Z-score: 240.1  bits: 51.2 E(85289): 1.2e-06
Smith-Waterman score: 244; 55.1% identity (75.4% similar) in 69 aa overlap (55-122:194-259)

           30        40        50        60        70        80    
pF1KB0 AAPSSSAAQLPWGESWGEEADTPACLSASGVWFQNRRTKWRKKSALEPSSSTPRAPGGAG
                                     ::::::::::::. :.: .:.  .  . : 
XP_016 EKTFEQTKYLAGPERARLAYSLGMTESQVKVWFQNRRTKWRKRHAVEMASAKKKQDSDAE
           170       180       190       200       210       220   

            90       100       110       120       130          
pF1KB0 A-GAGGDRAPSENEDDEYNKPLDPDSDDEKIRLLLRKHRAAFSVLSLGAHSV     
          .::. :   ..:::::.::::.::::::  ::.::.                  
XP_016 KLKVGGSDA---EDDDEYNRPLDPNSDDEKITRLLKKHKPSNLALVSPCGGGAGDAL
           230          240       250       260       270       

>>NP_796374 (OMIM: 605955) homeobox protein Nkx-6.2 [Hom  (277 aa)
 initn: 294 init1: 141 opt: 241  Z-score: 237.3  bits: 50.7 E(85289): 1.8e-06
Smith-Waterman score: 241; 55.1% identity (73.9% similar) in 69 aa overlap (55-122:194-259)

           30        40        50        60        70        80    
pF1KB0 AAPSSSAAQLPWGESWGEEADTPACLSASGVWFQNRRTKWRKKSALEPSSSTPRAPGGAG
                                     ::::::::::::. : : .:.  .  . : 
NP_796 EKTFEQTKYLAGPERARLAYSLGMTESQVKVWFQNRRTKWRKRHAAEMASAKKKQDSDAE
           170       180       190       200       210       220   

            90       100       110       120       130          
pF1KB0 A-GAGGDRAPSENEDDEYNKPLDPDSDDEKIRLLLRKHRAAFSVLSLGAHSV     
          .::. :   ..:::::.::::.::::::  ::.::.                  
NP_796 KLKVGGSDA---EDDDEYNRPLDPNSDDEKITRLLKKHKPSNLALVSPCGGGAGDAL
           230          240       250       260       270       




135 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Sat Nov  5 21:27:46 2016 done: Sat Nov  5 21:27:47 2016
 Total Scan time:  5.950 Total Display time: -0.030

Function used was FASTA [36.3.4 Apr, 2011]