Result of FASTA (omim) for
pFN21AB6268
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: pF1KB6268, 772 aa
1>>>pF1KB6268 772 - 772 aa - 772 aa
Library: /omim/omim.rfq.tfa
60827320 residues in 85289 sequences
Statistics: Expectation_n fit: rho(ln(x))= 9.2911+/-0.000425; mu= 2.5279+/- 0.027
mean_var=223.4613+/-44.766, 0's: 0 Z-trim(118.6): 22 B-trim: 428 in 1/53
Lambda= 0.085797
statistics sampled from 31743 (31766) to 31743 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
ktup: 2, E-join: 1 (0.719), E-opt: 0.2 (0.372), width: 16
Scan time: 13.810
The best scores are: opt bits E(85289)
NP_003189 (OMIM: 600786) transcription elongation ( 798) 5156 651.7 3.5e-186
NP_057511 (OMIM: 609522) RNA polymerase II transcr ( 753) 1551 205.5 7e-52
>>NP_003189 (OMIM: 600786) transcription elongation fact (798 aa)
initn: 5156 init1: 5156 opt: 5156 Z-score: 3463.6 bits: 651.7 E(85289): 3.5e-186
Smith-Waterman score: 5156; 100.0% identity (100.0% similar) in 772 aa overlap (1-772:27-798)
10 20 30
pF1KB6 MAAESALQVVEKLQARLAANPDPKKLLKYLKKLS
::::::::::::::::::::::::::::::::::
NP_003 MHGGRSCGPRTRREPSSGEEAAPVTAMAAESALQVVEKLQARLAANPDPKKLLKYLKKLS
10 20 30 40 50 60
40 50 60 70 80 90
pF1KB6 TLPITVDILAETGVGKTVNSLRKHEHVGSFARDLVAQWKKLVPVERNAEPDEQDFEKSNS
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_003 TLPITVDILAETGVGKTVNSLRKHEHVGSFARDLVAQWKKLVPVERNAEPDEQDFEKSNS
70 80 90 100 110 120
100 110 120 130 140 150
pF1KB6 RKRPRDALQKEEEMEGDYQETWKATGSRSYSPDHRQKKHRKLSELERPHKVSHGHERRDE
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_003 RKRPRDALQKEEEMEGDYQETWKATGSRSYSPDHRQKKHRKLSELERPHKVSHGHERRDE
130 140 150 160 170 180
160 170 180 190 200 210
pF1KB6 RKRCHRMSPTYSSDPESSDYGHVQSPPSCTSPHQMYVDHYRSLEEDQEPIVSHQKPGKGH
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_003 RKRCHRMSPTYSSDPESSDYGHVQSPPSCTSPHQMYVDHYRSLEEDQEPIVSHQKPGKGH
190 200 210 220 230 240
220 230 240 250 260 270
pF1KB6 SNAFQDRLGASQERHLGEPHGKGVVSQNKEHKSSHKDKRPVDAKSDEKASVVSREKSHKA
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_003 SNAFQDRLGASQERHLGEPHGKGVVSQNKEHKSSHKDKRPVDAKSDEKASVVSREKSHKA
250 260 270 280 290 300
280 290 300 310 320 330
pF1KB6 LSKEENRRPPSGDNAREKPPSSGVKKEKDREGSSLKKKCLPPSEAASDNHLKKPKHRDPE
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_003 LSKEENRRPPSGDNAREKPPSSGVKKEKDREGSSLKKKCLPPSEAASDNHLKKPKHRDPE
310 320 330 340 350 360
340 350 360 370 380 390
pF1KB6 KAKLDKSKQGLDSFDTGKGAGDLLPKVKEKGSNNLKTPEGKVKTNLDRKSLGSLPKVEET
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_003 KAKLDKSKQGLDSFDTGKGAGDLLPKVKEKGSNNLKTPEGKVKTNLDRKSLGSLPKVEET
370 380 390 400 410 420
400 410 420 430 440 450
pF1KB6 DMEDEFEQPTMSFESYLSYDQPRKKKKKIVKTSATALGDKGLKKNDSKSTGKNLDSVQKL
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_003 DMEDEFEQPTMSFESYLSYDQPRKKKKKIVKTSATALGDKGLKKNDSKSTGKNLDSVQKL
430 440 450 460 470 480
460 470 480 490 500 510
pF1KB6 PKVNKTKSEKPAGADLAKLRKVPDVLPVLPDLPLPAIQANYRPLPSLELISSFQPKRKAF
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_003 PKVNKTKSEKPAGADLAKLRKVPDVLPVLPDLPLPAIQANYRPLPSLELISSFQPKRKAF
490 500 510 520 530 540
520 530 540 550 560 570
pF1KB6 SSPQEEEEAGFTGRRMNSKMQVYSGSKCAYLPKMMTLHQQCIRVLKNNIDSIFEVGGVPY
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_003 SSPQEEEEAGFTGRRMNSKMQVYSGSKCAYLPKMMTLHQQCIRVLKNNIDSIFEVGGVPY
550 560 570 580 590 600
580 590 600 610 620 630
pF1KB6 SVLEPVLERCTPDQLYRIEEYNHVLIEETDQLWKVHCHRDFKEERPEEYESWREMYLRLQ
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_003 SVLEPVLERCTPDQLYRIEEYNHVLIEETDQLWKVHCHRDFKEERPEEYESWREMYLRLQ
610 620 630 640 650 660
640 650 660 670 680 690
pF1KB6 DAREQRLRVLTKNIQFAHANKPKGRQAKMAFVNSVAKPPRDVRRRQEKFGTGGAAVPEKI
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_003 DAREQRLRVLTKNIQFAHANKPKGRQAKMAFVNSVAKPPRDVRRRQEKFGTGGAAVPEKI
670 680 690 700 710 720
700 710 720 730 740 750
pF1KB6 KIKPAPYPMGSSHASASSISFNPSPEEPAYDGPSTSSAHLAPVVSSTVSYDPRKPTVKKI
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_003 KIKPAPYPMGSSHASASSISFNPSPEEPAYDGPSTSSAHLAPVVSSTVSYDPRKPTVKKI
730 740 750 760 770 780
760 770
pF1KB6 APMMAKTIKAFKNRFSRR
::::::::::::::::::
NP_003 APMMAKTIKAFKNRFSRR
790
>>NP_057511 (OMIM: 609522) RNA polymerase II transcripti (753 aa)
initn: 1853 init1: 674 opt: 1551 Z-score: 1052.4 bits: 205.5 E(85289): 7e-52
Smith-Waterman score: 2087; 47.7% identity (71.0% similar) in 791 aa overlap (1-772:1-753)
10 20 30 40 50
pF1KB6 MAAESA-LQVVEKLQARLAANPDPKKLLKYLKKLSTLPITVDILAETGVGKTVNSLRKHE
::: :. :..:::::.:::.. .:::: :::.:::.::.:.:::::::. :::. ::::.
NP_057 MAAGSTTLHAVEKLQVRLATKTEPKKLEKYLQKLSALPMTADILAETGIRKTVKRLRKHQ
10 20 30 40 50 60
60 70 80 90 100 110
pF1KB6 HVGSFARDLVAQWKKLVPVERNAEPDEQDFEKSNSRKRPRDALQKEEEMEGDYQETWKAT
:::.:::::.:.::::: :.::..: :: :.: ::.: .::: .:. : . :. :
NP_057 HVGDFARDLAARWKKLVLVDRNTRPGPQDPEESASRQRFGEALQDQEKAWG-FPENATAP
70 80 90 100 110
120 130 140 150 160 170
pF1KB6 GSRSYSPDHRQKKHRKLSELERPHKVSHGHERRDERKRCHRMSPTYSSDPESSDYGHVQS
: :.::.::. .: .::: ::..: : ::: : :..: .: :. ..
NP_057 RSPSHSPEHRRTARRTPPGQQRPHPRSHSREPRAERK-CPRIAP--------ADSGRYRA
120 130 140 150 160 170
180 190 200 210 220 230
pF1KB6 PPSCTSPHQMYVDHYRSLEEDQEPIVSHQKPGKGHSNAFQDRLGASQ--ERHLGEPHGKG
:. :.: .: : :: . ..::.::..: : :. :.:.::.
NP_057 SPTRTAPLRM--------PEGPEPAAPGKQPGRGHTHAAQ---GGPLLCPGCQGQPQGKA
180 190 200 210
240 250 260 270 280 290
pF1KB6 VVSQNKEHKSSHKDKRPVDAKSDEKASVVSREKSHKALSKEENRRPPSGDNAREKPPSS-
:::..: ::::...:::. :..: .. .. :::: : .::. : :: .::.. ::.
NP_057 VVSHSKGHKSSRQEKRPLCAQGDWHSPTLIREKSCGACLREETPRMPSWASARDRQPSDF
220 230 240 250 260 270
300 310 320 330 340 350
pF1KB6 GVKKEKDREGSSLKKKCLPPSEAASDNHLKKPKHRDPEKAKLDKSKQGLDSFDTGKGAGD
. :: . ::. . .: : : :.: :.:.: .. .:.. .::. : :.:.
NP_057 KTDKEGGQAGSGQR---VPALEEAPDSHQKRPQH-----SHSNKKRPSLDGRDPGNGTHG
280 290 300 310 320 330
360 370 380 390 400 410
pF1KB6 LLPKVKEKGSNNLKTPEGKVKT-NLDRKSLGSLPKVEETDMEDEFEQPTMSFESYLSYDQ
: :. ::. ::. .: ::: : .::: :..:: .:::.:: .::::::.: :.::.:::
NP_057 LSPEEKEQLSNDRETQEGKPPTAHLDRTSVSSLSEVEEVDMAEEFEQPTLSCEKYLTYDQ
340 350 360 370 380 390
420 430 440 450 460 470
pF1KB6 PRKKKKKIVKTSATALGDKGLKKNDSKSTGKNLDSVQKLPKVNKTKSEK--PAGADLAKL
::.::: :...:::::: : :.::.: .. ::..::: :....::. :::: :
NP_057 LRKQKKKTGKSATTALGDKQRKANESKGTRESWDSAKKLPPVQESQSERLQAAGADSAGP
400 410 420 430 440 450
480 490 500 510 520 530
pF1KB6 RKVPD-VLPVLPDLPLPAIQANYRPLPSLELISSFQPKRKAFSSPQEEEEAGFTGRRMNS
. ::. :. : :: .:::: :: . . ..: : : .:.:::. .:::.: :::.:.
NP_057 KTVPSHVFSELWDLSEAWMQANYDPLSDSDSMTS-QAKPEALSSPKFREEAAFPGRRVNA
460 470 480 490 500 510
540 550 560 570 580 590
pF1KB6 KMQVYSGSKCAYLPKMMTLHQQCIRVLKNNIDSIFEVGGVPYSVLEPVLERCTPDQLYRI
:: :::::. : .. ::.::: .::.:: :.. .:: ::: ::::::: ::::::
NP_057 KMPVYSGSRPACQLQVPTLRQQCAQVLRNNPDALSDVGEVPYWVLEPVLEGWRPDQLYRR
520 530 540 550 560 570
600 610 620 630 640 650
pF1KB6 EEYNHVLIEETDQLWKVHCHRDFKEERPEEYESWREMYLRLQDAREQRLRVLTKNIQFAH
.. ::.:..:::.: . :: .:::::.:.: ..:::.:::: :: ::::::.: ::. :.
NP_057 KKDNHALVRETDELRRNHCFQDFKEEKPQENKTWREQYLRLPDAPEQRLRVMTTNIRSAR
580 590 600 610 620 630
660 670 680 690 700 710
pF1KB6 ANKPKGRQAKMAFVNSVAKPPRDVRRRQEKFGTGGAAVPEKIKIKPAPYPMGSSHASASS
.:.:.::.::: .:::: : :. ::::: ..: : ::. .:::: : ::::. .:.
NP_057 GNNPNGREAKMICFKSVAKTPYDTSRRQEK--SAGDADPENGEIKPASKPAGSSHTPSSQ
640 650 660 670 680
720 730 740 750 760
pF1KB6 ISFNPS-----------PEEPAYDGPSTSSAHLAPVVSSTVSYDPRKPTVKKIAPMMAKT
: . . ::. : :.:. : ::.... :: ..::.::.:::.
NP_057 SSSGGGRDSSSSILRWLPEKRANPCLSSSNEHAAPAAKT------RKQAAKKVAPLMAKA
690 700 710 720 730 740
770
pF1KB6 IKAFKNRFSRR
:. .: :::::
NP_057 IRDYKRRFSRR
750
772 residues in 1 query sequences
60827320 residues in 85289 library sequences
Tcomplib [36.3.4 Apr, 2011] (8 proc)
start: Sat Nov 5 13:59:12 2016 done: Sat Nov 5 13:59:14 2016
Total Scan time: 13.810 Total Display time: 0.010
Function used was FASTA [36.3.4 Apr, 2011]