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: pF1KB7579, 220 aa
  1>>>pF1KB7579 220 - 220 aa - 220 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 6.8454+/-0.000311; mu= 9.3174+/- 0.020
 mean_var=157.4002+/-31.333, 0's: 0 Z-trim(121.7): 7  B-trim: 312 in 1/58
 Lambda= 0.102228
 statistics sampled from 38658 (38676) to 38658 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.792), E-opt: 0.2 (0.453), width:  16
 Scan time:  6.090

The best scores are:                                      opt bits E(85289)
NP_003855 (OMIM: 603378) histone deacetylase compl ( 220) 1468 227.2 1.6e-59
NP_078908 (OMIM: 610398) histone deacetylase compl ( 183)  824 132.2 5.6e-31
NP_001124534 (OMIM: 610398) histone deacetylase co ( 142)  341 60.8 1.3e-09
NP_001124535 (OMIM: 610398) histone deacetylase co ( 137)  305 55.5 5.1e-08


>>NP_003855 (OMIM: 603378) histone deacetylase complex s  (220 aa)
 initn: 1468 init1: 1468 opt: 1468  Z-score: 1189.4  bits: 227.2 E(85289): 1.6e-59
Smith-Waterman score: 1468; 100.0% identity (100.0% similar) in 220 aa overlap (1-220:1-220)

               10        20        30        40        50        60
pF1KB7 MNGFTPDEMSRGGDAAAAVAAVVAAAAAAASAGNGTGAGTGAEVPGAGAVSAAGPPGAAG
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_003 MNGFTPDEMSRGGDAAAAVAAVVAAAAAAASAGNGTGAGTGAEVPGAGAVSAAGPPGAAG
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KB7 PGPGQLCCLREDGERCGRAAGNASFSKRIQKSISQKKVKIELDKSARHLYICDYHKNLIQ
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_003 PGPGQLCCLREDGERCGRAAGNASFSKRIQKSISQKKVKIELDKSARHLYICDYHKNLIQ
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KB7 SVRNRRKRKGSDDDGGDSPVQDIDTPEVDLYQLQVNTLRRYKRHFKLPTRPGLNKAQLVE
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_003 SVRNRRKRKGSDDDGGDSPVQDIDTPEVDLYQLQVNTLRRYKRHFKLPTRPGLNKAQLVE
              130       140       150       160       170       180

              190       200       210       220
pF1KB7 IVGCHFRSIPVNEKDTLTYFIYSVKNDKNKSDLKVDSGVH
       ::::::::::::::::::::::::::::::::::::::::
NP_003 IVGCHFRSIPVNEKDTLTYFIYSVKNDKNKSDLKVDSGVH
              190       200       210       220

>>NP_078908 (OMIM: 610398) histone deacetylase complex s  (183 aa)
 initn: 910 init1: 428 opt: 824  Z-score: 677.1  bits: 132.2 E(85289): 5.6e-31
Smith-Waterman score: 824; 71.9% identity (87.1% similar) in 171 aa overlap (51-218:10-179)

               30        40        50           60        70       
pF1KB7 AVVAAAAAAASAGNGTGAGTGAEVPGAGAVSAAGPPGA---AGPGPGQLCCLREDGERCG
                                     :  :::.:   :.:: :: ::: :::::: 
NP_078                      MNGFSTEEDSREGPPAAPAAAAPGYGQSCCLIEDGERCV
                                    10        20        30         

        80        90       100       110       120       130       
pF1KB7 RAAGNASFSKRIQKSISQKKVKIELDKSARHLYICDYHKNLIQSVRNRRKRKGSDDDGGD
       : :::::::::.::::::::.:...:::.:::::::.:::.::::::.:::: ::: :::
NP_078 RPAGNASFSKRVQKSISQKKLKLDIDKSVRHLYICDFHKNFIQSVRNKRKRKTSDD-GGD
      40        50        60        70        80        90         

       140       150       160       170       180       190       
pF1KB7 SPVQDIDTPEVDLYQLQVNTLRRYKRHFKLPTRPGLNKAQLVEIVGCHFRSIPVNEKDTL
       :: .: : :::::.:::::::::::::.:: ::::.:::::.: :. :::.::::::.::
NP_078 SPEHDTDIPEVDLFQLQVNTLRRYKRHYKLQTRPGFNKAQLAETVSRHFRNIPVNEKETL
      100       110       120       130       140       150        

       200       210       220  
pF1KB7 TYFIYSVKNDKNKSDLKVDSGVH  
       .:::: ::..:.. : : ..:    
NP_078 AYFIYMVKSNKSRLDQKSEGGKQLE
      160       170       180   

>>NP_001124534 (OMIM: 610398) histone deacetylase comple  (142 aa)
 initn: 597 init1: 334 opt: 341  Z-score: 293.5  bits: 60.8 E(85289): 1.3e-09
Smith-Waterman score: 507; 53.2% identity (65.5% similar) in 171 aa overlap (51-218:10-138)

               30        40        50           60        70       
pF1KB7 AVVAAAAAAASAGNGTGAGTGAEVPGAGAVSAAGPPGA---AGPGPGQLCCLREDGERCG
                                     :  :::.:   :.:: :: ::: :::::: 
NP_001                      MNGFSTEEDSREGPPAAPAAAAPGYGQSCCLIEDGERCV
                                    10        20        30         

        80        90       100       110       120       130       
pF1KB7 RAAGNASFSKRIQKSISQKKVKIELDKSARHLYICDYHKNLIQSVRNRRKRKGSDDDGGD
       : :::::::::.::::::::.:...:::                                
NP_001 RPAGNASFSKRVQKSISQKKLKLDIDKS--------------------------------
      40        50        60                                       

       140       150       160       170       180       190       
pF1KB7 SPVQDIDTPEVDLYQLQVNTLRRYKRHFKLPTRPGLNKAQLVEIVGCHFRSIPVNEKDTL
                 :::.:::::::::::::.:: ::::.:::::.: :. :::.::::::.::
NP_001 ----------VDLFQLQVNTLRRYKRHYKLQTRPGFNKAQLAETVSRHFRNIPVNEKETL
                  70        80        90       100       110       

       200       210       220  
pF1KB7 TYFIYSVKNDKNKSDLKVDSGVH  
       .:::: ::..:.. : : ..:    
NP_001 AYFIYMVKSNKSRLDQKSEGGKQLE
       120       130       140  

>>NP_001124535 (OMIM: 610398) histone deacetylase comple  (137 aa)
 initn: 568 init1: 305 opt: 305  Z-score: 265.0  bits: 55.5 E(85289): 5.1e-08
Smith-Waterman score: 468; 50.9% identity (62.6% similar) in 171 aa overlap (51-218:10-133)

               30        40        50           60        70       
pF1KB7 AVVAAAAAAASAGNGTGAGTGAEVPGAGAVSAAGPPGA---AGPGPGQLCCLREDGERCG
                                     :  :::.:   :.:: :: ::: :::::: 
NP_001                      MNGFSTEEDSREGPPAAPAAAAPGYGQSCCLIEDGERCV
                                    10        20        30         

        80        90       100       110       120       130       
pF1KB7 RAAGNASFSKRIQKSISQKKVKIELDKSARHLYICDYHKNLIQSVRNRRKRKGSDDDGGD
       : :::::::::.::::::::.:...:::                                
NP_001 RPAGNASFSKRVQKSISQKKLKLDIDKS--------------------------------
      40        50        60                                       

       140       150       160       170       180       190       
pF1KB7 SPVQDIDTPEVDLYQLQVNTLRRYKRHFKLPTRPGLNKAQLVEIVGCHFRSIPVNEKDTL
                      ::::::::::::.:: ::::.:::::.: :. :::.::::::.::
NP_001 ---------------LQVNTLRRYKRHYKLQTRPGFNKAQLAETVSRHFRNIPVNEKETL
                       70        80        90       100       110  

       200       210       220  
pF1KB7 TYFIYSVKNDKNKSDLKVDSGVH  
       .:::: ::..:.. : : ..:    
NP_001 AYFIYMVKSNKSRLDQKSEGGKQLE
            120       130       




220 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Mon Nov  7 17:32:16 2016 done: Mon Nov  7 17:32:16 2016
 Total Scan time:  6.090 Total Display time: -0.020

Function used was FASTA [36.3.4 Apr, 2011]