Result of FASTA (omim) for pF1KB9887
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: pF1KB9887, 753 aa
  1>>>pF1KB9887 753 - 753 aa - 753 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 9.8289+/-0.00039; mu= 1.0422+/- 0.024
 mean_var=301.2449+/-60.299, 0's: 0 Z-trim(121.7): 6  B-trim: 0 in 0/62
 Lambda= 0.073895
 statistics sampled from 38608 (38614) to 38608 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.768), E-opt: 0.2 (0.453), width:  16
 Scan time: 14.600

The best scores are:                                      opt bits E(85289)
NP_057511 (OMIM: 609522) RNA polymerase II transcr ( 753) 5154 563.5 1.1e-159
NP_003189 (OMIM: 600786) transcription elongation  ( 798) 1551 179.4   5e-44


>>NP_057511 (OMIM: 609522) RNA polymerase II transcripti  (753 aa)
 initn: 5154 init1: 5154 opt: 5154  Z-score: 2987.6  bits: 563.5 E(85289): 1.1e-159
Smith-Waterman score: 5154; 100.0% identity (100.0% similar) in 753 aa overlap (1-753:1-753)

               10        20        30        40        50        60
pF1KB9 MAAGSTTLHAVEKLQVRLATKTEPKKLEKYLQKLSALPMTADILAETGIRKTVKRLRKHQ
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_057 MAAGSTTLHAVEKLQVRLATKTEPKKLEKYLQKLSALPMTADILAETGIRKTVKRLRKHQ
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KB9 HVGDFARDLAARWKKLVLVDRNTRPGPQDPEESASRQRFGEALQDQEKAWGFPENATAPR
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_057 HVGDFARDLAARWKKLVLVDRNTRPGPQDPEESASRQRFGEALQDQEKAWGFPENATAPR
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KB9 SPSHSPEHRRTARRTPPGQQRPHPRSHSREPRAERKCPRIAPADSGRYRASPTRTAPLRM
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_057 SPSHSPEHRRTARRTPPGQQRPHPRSHSREPRAERKCPRIAPADSGRYRASPTRTAPLRM
              130       140       150       160       170       180

              190       200       210       220       230       240
pF1KB9 PEGPEPAAPGKQPGRGHTHAAQGGPLLCPGCQGQPQGKAVVSHSKGHKSSRQEKRPLCAQ
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_057 PEGPEPAAPGKQPGRGHTHAAQGGPLLCPGCQGQPQGKAVVSHSKGHKSSRQEKRPLCAQ
              190       200       210       220       230       240

              250       260       270       280       290       300
pF1KB9 GDWHSPTLIREKSCGACLREETPRMPSWASARDRQPSDFKTDKEGGQAGSGQRVPALEEA
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_057 GDWHSPTLIREKSCGACLREETPRMPSWASARDRQPSDFKTDKEGGQAGSGQRVPALEEA
              250       260       270       280       290       300

              310       320       330       340       350       360
pF1KB9 PDSHQKRPQHSHSNKKRPSLDGRDPGNGTHGLSPEEKEQLSNDRETQEGKPPTAHLDRTS
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_057 PDSHQKRPQHSHSNKKRPSLDGRDPGNGTHGLSPEEKEQLSNDRETQEGKPPTAHLDRTS
              310       320       330       340       350       360

              370       380       390       400       410       420
pF1KB9 VSSLSEVEEVDMAEEFEQPTLSCEKYLTYDQLRKQKKKTGKSATTALGDKQRKANESKGT
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_057 VSSLSEVEEVDMAEEFEQPTLSCEKYLTYDQLRKQKKKTGKSATTALGDKQRKANESKGT
              370       380       390       400       410       420

              430       440       450       460       470       480
pF1KB9 RESWDSAKKLPPVQESQSERLQAAGADSAGPKTVPSHVFSELWDLSEAWMQANYDPLSDS
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_057 RESWDSAKKLPPVQESQSERLQAAGADSAGPKTVPSHVFSELWDLSEAWMQANYDPLSDS
              430       440       450       460       470       480

              490       500       510       520       530       540
pF1KB9 DSMTSQAKPEALSSPKFREEAAFPGRRVNAKMPVYSGSRPACQLQVPTLRQQCAQVLRNN
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_057 DSMTSQAKPEALSSPKFREEAAFPGRRVNAKMPVYSGSRPACQLQVPTLRQQCAQVLRNN
              490       500       510       520       530       540

              550       560       570       580       590       600
pF1KB9 PDALSDVGEVPYWVLEPVLEGWRPDQLYRRKKDNHALVRETDELRRNHCFQDFKEEKPQE
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_057 PDALSDVGEVPYWVLEPVLEGWRPDQLYRRKKDNHALVRETDELRRNHCFQDFKEEKPQE
              550       560       570       580       590       600

              610       620       630       640       650       660
pF1KB9 NKTWREQYLRLPDAPEQRLRVMTTNIRSARGNNPNGREAKMICFKSVAKTPYDTSRRQEK
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_057 NKTWREQYLRLPDAPEQRLRVMTTNIRSARGNNPNGREAKMICFKSVAKTPYDTSRRQEK
              610       620       630       640       650       660

              670       680       690       700       710       720
pF1KB9 SAGDADPENGEIKPASKPAGSSHTPSSQSSSGGGRDSSSSILRWLPEKRANPCLSSSNEH
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_057 SAGDADPENGEIKPASKPAGSSHTPSSQSSSGGGRDSSSSILRWLPEKRANPCLSSSNEH
              670       680       690       700       710       720

              730       740       750   
pF1KB9 AAPAAKTRKQAAKKVAPLMAKAIRDYKRRFSRR
       :::::::::::::::::::::::::::::::::
NP_057 AAPAAKTRKQAAKKVAPLMAKAIRDYKRRFSRR
              730       740       750   

>>NP_003189 (OMIM: 600786) transcription elongation fact  (798 aa)
 initn: 1853 init1: 674 opt: 1551  Z-score: 911.4  bits: 179.4 E(85289): 5e-44
Smith-Waterman score: 2087; 47.7% identity (71.2% similar) in 791 aa overlap (1-753:27-798)

                                         10        20        30    
pF1KB9                           MAAGSTTLHAVEKLQVRLATKTEPKKLEKYLQKL
                                 ::: :. :..:::::.:::.. .:::: :::.::
NP_003 MHGGRSCGPRTRREPSSGEEAAPVTAMAAESA-LQVVEKLQARLAANPDPKKLLKYLKKL
               10        20        30         40        50         

           40        50        60        70        80        90    
pF1KB9 SALPMTADILAETGIRKTVKRLRKHQHVGDFARDLAARWKKLVLVDRNTRPGPQDPEESA
       :.::.:.:::::::. :::. ::::.:::.:::::.:.::::: :.::..:  :: :.: 
NP_003 STLPITVDILAETGVGKTVNSLRKHEHVGSFARDLVAQWKKLVPVERNAEPDEQDFEKSN
      60        70        80        90       100       110         

          100       110        120       130       140       150   
pF1KB9 SRQRFGEALQDQEKAWG-FPENATAPRSPSHSPEHRRTARRTPPGQQRPHPRSHSREPRA
       ::.:  .::: .:.  : . :.  :  : :.::.::.  .:     .:::  ::..: : 
NP_003 SRKRPRDALQKEEEMEGDYQETWKATGSRSYSPDHRQKKHRKLSELERPHKVSHGHERRD
     120       130       140       150       160       170         

            160               170       180               190      
pF1KB9 ERK-CPRIAP--------ADSGRYRASPTRTAPLRM--------PEGPEPAAPGKQPGRG
       ::: : :..:        .: :. .. :. :.: .:         :  :: .  ..::.:
NP_003 ERKRCHRMSPTYSSDPESSDYGHVQSPPSCTSPHQMYVDHYRSLEEDQEPIVSHQKPGKG
     180       190       200       210       220       230         

        200       210          220       230       240       250   
pF1KB9 HTHAAQGGPLLCPGCQ---GQPQGKAVVSHSKGHKSSRQEKRPLCAQGDWHSPTLIREKS
       :..: :    :  . .   :.:.::.:::..: ::::...:::. :..: .. .. ::::
NP_003 HSNAFQD--RLGASQERHLGEPHGKGVVSQNKEHKSSHKDKRPVDAKSDEKASVVSREKS
     240         250       260       270       280       290       

           260       270       280       290          300       310
pF1KB9 CGACLREETPRMPSWASARDRQPSDFKTDKEGGQAGSGQR---VPALEEAPDSHQKRPQH
         :  .::. : ::  .::.. ::.  . ::  . ::. .   .:  : : :.: :.:.:
NP_003 HKALSKEENRRPPSGDNAREKPPSS-GVKKEKDREGSSLKKKCLPPSEAASDNHLKKPKH
       300       310       320        330       340       350      

                   320       330       340       350       360     
pF1KB9 -----SHSNKKRPSLDGRDPGNGTHGLSPEEKEQLSNDRETQEGKPPTAHLDRTSVSSLS
            .. .:.. .::. : :.:.  : :. ::. ::. .: :::  : .::: :..:: 
NP_003 RDPEKAKLDKSKQGLDSFDTGKGAGDLLPKVKEKGSNNLKTPEGKVKT-NLDRKSLGSLP
        360       370       380       390       400        410     

         370       380       390       400       410       420     
pF1KB9 EVEEVDMAEEFEQPTLSCEKYLTYDQLRKQKKKTGKSATTALGDKQRKANESKGTRESWD
       .:::.:: .::::::.: :.::.::: ::.:::  :...::::::  : :.::.: .. :
NP_003 KVEETDMEDEFEQPTMSFESYLSYDQPRKKKKKIVKTSATALGDKGLKKNDSKSTGKNLD
         420       430       440       450       460       470     

         430       440       450       460       470       480     
pF1KB9 SAKKLPPVQESQSERLQAAGADSAGPKTVPSHVFSELWDLSEAWMQANYDPLSDSDSMTS
       :..::: :....::.   :::: :  . ::. :.  : ::    .:::: :: . . ..:
NP_003 SVQKLPKVNKTKSEK--PAGADLAKLRKVPD-VLPVLPDLPLPAIQANYRPLPSLELISS
         480       490         500        510       520       530  

          490       500       510       520       530       540    
pF1KB9 -QAKPEALSSPKFREEAAFPGRRVNAKMPVYSGSRPACQLQVPTLRQQCAQVLRNNPDAL
        : : .:.:::. .:::.: :::.:.:: :::::. :   .. ::.::: .::.:: :..
NP_003 FQPKRKAFSSPQEEEEAGFTGRRMNSKMQVYSGSKCAYLPKMMTLHQQCIRVLKNNIDSI
            540       550       560       570       580       590  

          550       560       570       580       590       600    
pF1KB9 SDVGEVPYWVLEPVLEGWRPDQLYRRKKDNHALVRETDELRRNHCFQDFKEEKPQENKTW
        .:: ::: :::::::   :::::: .. ::.:..:::.: . :: .:::::.:.: ..:
NP_003 FEVGGVPYSVLEPVLERCTPDQLYRIEEYNHVLIEETDQLWKVHCHRDFKEERPEEYESW
            600       610       620       630       640       650  

          610       620       630       640       650       660    
pF1KB9 REQYLRLPDAPEQRLRVMTTNIRSARGNNPNGREAKMICFKSVAKTPYDTSRRQEK--SA
       ::.:::: :: ::::::.: ::. :..:.:.::.:::   .:::: : :. :::::  ..
NP_003 REMYLRLQDAREQRLRVLTKNIQFAHANKPKGRQAKMAFVNSVAKPPRDVRRRQEKFGTG
            660       670       680       690       700       710  

            670       680       690       700       710       720  
pF1KB9 GDADPENGEIKPASKPAGSSHTPSSQSSSGGGRDSSSSILRWLPEKRANPCLSSSNEHAA
       : : ::. .::::  : ::::. .:. : . .           ::. :    :.:. : :
NP_003 GAAVPEKIKIKPAPYPMGSSHASASSISFNPS-----------PEEPAYDGPSTSSAHLA
            720       730       740                  750       760 

                  730       740       750   
pF1KB9 PAAKT------RKQAAKKVAPLMAKAIRDYKRRFSRR
       :....      :: ..::.::.:::.:. .: :::::
NP_003 PVVSSTVSYDPRKPTVKKIAPMMAKTIKAFKNRFSRR
             770       780       790        




753 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Sat Nov  5 09:38:48 2016 done: Sat Nov  5 09:38:50 2016
 Total Scan time: 14.600 Total Display time:  0.030

Function used was FASTA [36.3.4 Apr, 2011]
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