Result of FASTA (omim) for
pFN21AB9887
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]