Result of FASTA (omim) for
pF1KB0908
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: pF1KB0908, 311 aa
1>>>pF1KB0908 311 - 311 aa - 311 aa
Library: /omim/omim.rfq.tfa
60827320 residues in 85289 sequences
Statistics: Expectation_n fit: rho(ln(x))= 5.5166+/-0.000356; mu= 15.1639+/- 0.022
mean_var=69.9903+/-14.277, 0's: 0 Z-trim(114.1): 35 B-trim: 612 in 1/57
Lambda= 0.153305
statistics sampled from 23810 (23826) to 23810 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
ktup: 2, E-join: 1 (0.654), E-opt: 0.2 (0.279), width: 16
Scan time: 6.450
The best scores are: opt bits E(85289)
NP_004260 (OMIM: 605044) mediator of RNA polymeras ( 311) 2062 464.9 9.1e-131
XP_005272293 (OMIM: 605044) PREDICTED: mediator of ( 266) 1555 352.8 4.5e-97
XP_016870819 (OMIM: 605044) PREDICTED: mediator of ( 296) 1484 337.1 2.6e-92
XP_016870818 (OMIM: 605044) PREDICTED: mediator of ( 341) 1473 334.7 1.6e-91
NP_001240810 (OMIM: 605044) mediator of RNA polyme ( 275) 1240 283.1 4.4e-76
NP_001240811 (OMIM: 605044) mediator of RNA polyme ( 130) 751 174.8 8.4e-44
>>NP_004260 (OMIM: 605044) mediator of RNA polymerase II (311 aa)
initn: 2062 init1: 2062 opt: 2062 Z-score: 2468.7 bits: 464.9 E(85289): 9.1e-131
Smith-Waterman score: 2062; 100.0% identity (100.0% similar) in 311 aa overlap (1-311:1-311)
10 20 30 40 50 60
pF1KB0 MADVINVSVNLEAFSQAISAIQALRSSVSRVFDCLKDGMRNKETLEGREKAFIAHFQDNL
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 MADVINVSVNLEAFSQAISAIQALRSSVSRVFDCLKDGMRNKETLEGREKAFIAHFQDNL
10 20 30 40 50 60
70 80 90 100 110 120
pF1KB0 HSVNRDLNELERLSNLVGKPSENHPLHNSGLLSLDPVQDKTPLYSQLLQAYKWSNKLQYH
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 HSVNRDLNELERLSNLVGKPSENHPLHNSGLLSLDPVQDKTPLYSQLLQAYKWSNKLQYH
70 80 90 100 110 120
130 140 150 160 170 180
pF1KB0 AGLASGLLNQQSLKRSANQMGVSAKRRPKAQPTTLVLPPQYVDDVISRIDRMFPEMSIHL
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 AGLASGLLNQQSLKRSANQMGVSAKRRPKAQPTTLVLPPQYVDDVISRIDRMFPEMSIHL
130 140 150 160 170 180
190 200 210 220 230 240
pF1KB0 SRPNGTSAMLLVTLGKVLKVIVVMRSLFIDRTIVKGYNENVYTEDGKLDIWSKSNYQVFQ
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 SRPNGTSAMLLVTLGKVLKVIVVMRSLFIDRTIVKGYNENVYTEDGKLDIWSKSNYQVFQ
190 200 210 220 230 240
250 260 270 280 290 300
pF1KB0 KVTDHATTALLHYQLPQMPDVVVRSFMTWLRSYIKLFQAPCQRCGKFLQDGLPPTWRDFR
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 KVTDHATTALLHYQLPQMPDVVVRSFMTWLRSYIKLFQAPCQRCGKFLQDGLPPTWRDFR
250 260 270 280 290 300
310
pF1KB0 TLEAFHDTCRQ
:::::::::::
NP_004 TLEAFHDTCRQ
310
>>XP_005272293 (OMIM: 605044) PREDICTED: mediator of RNA (266 aa)
initn: 1555 init1: 1555 opt: 1555 Z-score: 1863.7 bits: 352.8 E(85289): 4.5e-97
Smith-Waterman score: 1555; 100.0% identity (100.0% similar) in 241 aa overlap (1-241:1-241)
10 20 30 40 50 60
pF1KB0 MADVINVSVNLEAFSQAISAIQALRSSVSRVFDCLKDGMRNKETLEGREKAFIAHFQDNL
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_005 MADVINVSVNLEAFSQAISAIQALRSSVSRVFDCLKDGMRNKETLEGREKAFIAHFQDNL
10 20 30 40 50 60
70 80 90 100 110 120
pF1KB0 HSVNRDLNELERLSNLVGKPSENHPLHNSGLLSLDPVQDKTPLYSQLLQAYKWSNKLQYH
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_005 HSVNRDLNELERLSNLVGKPSENHPLHNSGLLSLDPVQDKTPLYSQLLQAYKWSNKLQYH
70 80 90 100 110 120
130 140 150 160 170 180
pF1KB0 AGLASGLLNQQSLKRSANQMGVSAKRRPKAQPTTLVLPPQYVDDVISRIDRMFPEMSIHL
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_005 AGLASGLLNQQSLKRSANQMGVSAKRRPKAQPTTLVLPPQYVDDVISRIDRMFPEMSIHL
130 140 150 160 170 180
190 200 210 220 230 240
pF1KB0 SRPNGTSAMLLVTLGKVLKVIVVMRSLFIDRTIVKGYNENVYTEDGKLDIWSKSNYQVFQ
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_005 SRPNGTSAMLLVTLGKVLKVIVVMRSLFIDRTIVKGYNENVYTEDGKLDIWSKSNYQVFQ
190 200 210 220 230 240
250 260 270 280 290 300
pF1KB0 KVTDHATTALLHYQLPQMPDVVVRSFMTWLRSYIKLFQAPCQRCGKFLQDGLPPTWRDFR
:
XP_005 KACFFQVLDAEQKNNFVVEKCKTKKY
250 260
>>XP_016870819 (OMIM: 605044) PREDICTED: mediator of RNA (296 aa)
initn: 1459 init1: 1459 opt: 1484 Z-score: 1778.1 bits: 337.1 E(85289): 2.6e-92
Smith-Waterman score: 1485; 88.9% identity (88.9% similar) in 271 aa overlap (1-241:1-271)
10 20 30 40 50 60
pF1KB0 MADVINVSVNLEAFSQAISAIQALRSSVSRVFDCLKDGMRNKETLEGREKAFIAHFQDNL
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 MADVINVSVNLEAFSQAISAIQALRSSVSRVFDCLKDGMRNKETLEGREKAFIAHFQDNL
10 20 30 40 50 60
70 80 90 100 110 120
pF1KB0 HSVNRDLNELERLSNLVGKPSENHPLHNSGLLSLDPVQDKTPLYSQLLQAYKWSNKLQYH
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 HSVNRDLNELERLSNLVGKPSENHPLHNSGLLSLDPVQDKTPLYSQLLQAYKWSNKLQYH
70 80 90 100 110 120
130 140 150 160 170 180
pF1KB0 AGLASGLLNQQSLKRSANQMGVSAKRRPKAQPTTLVLPPQYVDDVISRIDRMFPEMSIHL
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 AGLASGLLNQQSLKRSANQMGVSAKRRPKAQPTTLVLPPQYVDDVISRIDRMFPEMSIHL
130 140 150 160 170 180
190 200 210 220
pF1KB0 SRPNGTSAMLLVTLGKVLKVIVVMRSLFIDRTIVKGYNENVYTEDGK-------------
:::::::::::::::::::::::::::::::::::::::::::::::
XP_016 SRPNGTSAMLLVTLGKVLKVIVVMRSLFIDRTIVKGYNENVYTEDGKFFLCVKRSFDVLV
190 200 210 220 230 240
230 240 250 260 270
pF1KB0 -----------------LDIWSKSNYQVFQKVTDHATTALLHYQLPQMPDVVVRSFMTWL
::::::::::::::
XP_016 FALRTDVSVLKQLVICKLDIWSKSNYQVFQKACFFQVLDAEQKNNFVVEKCKTKKY
250 260 270 280 290
280 290 300 310
pF1KB0 RSYIKLFQAPCQRCGKFLQDGLPPTWRDFRTLEAFHDTCRQ
>>XP_016870818 (OMIM: 605044) PREDICTED: mediator of RNA (341 aa)
initn: 1459 init1: 1459 opt: 1473 Z-score: 1764.1 bits: 334.7 E(85289): 1.6e-91
Smith-Waterman score: 1992; 91.2% identity (91.2% similar) in 341 aa overlap (1-311:1-341)
10 20 30 40 50 60
pF1KB0 MADVINVSVNLEAFSQAISAIQALRSSVSRVFDCLKDGMRNKETLEGREKAFIAHFQDNL
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 MADVINVSVNLEAFSQAISAIQALRSSVSRVFDCLKDGMRNKETLEGREKAFIAHFQDNL
10 20 30 40 50 60
70 80 90 100 110 120
pF1KB0 HSVNRDLNELERLSNLVGKPSENHPLHNSGLLSLDPVQDKTPLYSQLLQAYKWSNKLQYH
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 HSVNRDLNELERLSNLVGKPSENHPLHNSGLLSLDPVQDKTPLYSQLLQAYKWSNKLQYH
70 80 90 100 110 120
130 140 150 160 170 180
pF1KB0 AGLASGLLNQQSLKRSANQMGVSAKRRPKAQPTTLVLPPQYVDDVISRIDRMFPEMSIHL
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 AGLASGLLNQQSLKRSANQMGVSAKRRPKAQPTTLVLPPQYVDDVISRIDRMFPEMSIHL
130 140 150 160 170 180
190 200 210 220
pF1KB0 SRPNGTSAMLLVTLGKVLKVIVVMRSLFIDRTIVKGYNENVYTEDGK-------------
:::::::::::::::::::::::::::::::::::::::::::::::
XP_016 SRPNGTSAMLLVTLGKVLKVIVVMRSLFIDRTIVKGYNENVYTEDGKFFLCVKRSFDVLV
190 200 210 220 230 240
230 240 250 260 270
pF1KB0 -----------------LDIWSKSNYQVFQKVTDHATTALLHYQLPQMPDVVVRSFMTWL
:::::::::::::::::::::::::::::::::::::::::::
XP_016 FALRTDVSVLKQLVICKLDIWSKSNYQVFQKVTDHATTALLHYQLPQMPDVVVRSFMTWL
250 260 270 280 290 300
280 290 300 310
pF1KB0 RSYIKLFQAPCQRCGKFLQDGLPPTWRDFRTLEAFHDTCRQ
:::::::::::::::::::::::::::::::::::::::::
XP_016 RSYIKLFQAPCQRCGKFLQDGLPPTWRDFRTLEAFHDTCRQ
310 320 330 340
>>NP_001240810 (OMIM: 605044) mediator of RNA polymerase (275 aa)
initn: 1240 init1: 1240 opt: 1240 Z-score: 1487.0 bits: 283.1 E(85289): 4.4e-76
Smith-Waterman score: 1760; 88.4% identity (88.4% similar) in 311 aa overlap (1-311:1-275)
10 20 30 40 50 60
pF1KB0 MADVINVSVNLEAFSQAISAIQALRSSVSRVFDCLKDGMRNKETLEGREKAFIAHFQDNL
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 MADVINVSVNLEAFSQAISAIQALRSSVSRVFDCLKDGMRNKETLEGREKAFIAHFQDNL
10 20 30 40 50 60
70 80 90 100 110 120
pF1KB0 HSVNRDLNELERLSNLVGKPSENHPLHNSGLLSLDPVQDKTPLYSQLLQAYKWSNKLQYH
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 HSVNRDLNELERLSNLVGKPSENHPLHNSGLLSLDPVQDKTPLYSQLLQAYKWSNKLQYH
70 80 90 100 110 120
130 140 150 160 170 180
pF1KB0 AGLASGLLNQQSLKRSANQMGVSAKRRPKAQPTTLVLPPQYVDDVISRIDRMFPEMSIHL
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 AGLASGLLNQQSLKRSANQMGVSAKRRPKAQPTTLVLPPQYVDDVISRIDRMFPEMSIHL
130 140 150 160 170 180
190 200 210 220 230 240
pF1KB0 SRPNGTSAMLLVTLGKVLKVIVVMRSLFIDRTIVKGYNENVYTEDGKLDIWSKSNYQVFQ
::::::::::: :::::::::::::
NP_001 SRPNGTSAMLL------------------------------------LDIWSKSNYQVFQ
190 200
250 260 270 280 290 300
pF1KB0 KVTDHATTALLHYQLPQMPDVVVRSFMTWLRSYIKLFQAPCQRCGKFLQDGLPPTWRDFR
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 KVTDHATTALLHYQLPQMPDVVVRSFMTWLRSYIKLFQAPCQRCGKFLQDGLPPTWRDFR
210 220 230 240 250 260
310
pF1KB0 TLEAFHDTCRQ
:::::::::::
NP_001 TLEAFHDTCRQ
270
>>NP_001240811 (OMIM: 605044) mediator of RNA polymerase (130 aa)
initn: 751 init1: 751 opt: 751 Z-score: 907.4 bits: 174.8 E(85289): 8.4e-44
Smith-Waterman score: 751; 100.0% identity (100.0% similar) in 116 aa overlap (1-116:1-116)
10 20 30 40 50 60
pF1KB0 MADVINVSVNLEAFSQAISAIQALRSSVSRVFDCLKDGMRNKETLEGREKAFIAHFQDNL
::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 MADVINVSVNLEAFSQAISAIQALRSSVSRVFDCLKDGMRNKETLEGREKAFIAHFQDNL
10 20 30 40 50 60
70 80 90 100 110 120
pF1KB0 HSVNRDLNELERLSNLVGKPSENHPLHNSGLLSLDPVQDKTPLYSQLLQAYKWSNKLQYH
::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 HSVNRDLNELERLSNLVGKPSENHPLHNSGLLSLDPVQDKTPLYSQLLQAYKWSNKKEQL
70 80 90 100 110 120
130 140 150 160 170 180
pF1KB0 AGLASGLLNQQSLKRSANQMGVSAKRRPKAQPTTLVLPPQYVDDVISRIDRMFPEMSIHL
NP_001 SIPRIFHWKV
130
311 residues in 1 query sequences
60827320 residues in 85289 library sequences
Tcomplib [36.3.4 Apr, 2011] (8 proc)
start: Sat Nov 5 17:09:24 2016 done: Sat Nov 5 17:09:25 2016
Total Scan time: 6.450 Total Display time: -0.010
Function used was FASTA [36.3.4 Apr, 2011]