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: pF1KB7822, 600 aa
  1>>>pF1KB7822 600 - 600 aa - 600 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 12.4423+/-0.000407; mu= -13.4253+/- 0.025
 mean_var=405.9383+/-83.753, 0's: 0 Z-trim(123.4): 1  B-trim: 795 in 1/58
 Lambda= 0.063657
 statistics sampled from 43232 (43234) to 43232 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.802), E-opt: 0.2 (0.507), width:  16
 Scan time: 13.190

The best scores are:                                      opt bits E(85289)
NP_004822 (OMIM: 605043) mediator of RNA polymeras ( 600) 4105 391.2 5.4e-108


>>NP_004822 (OMIM: 605043) mediator of RNA polymerase II  (600 aa)
 initn: 4105 init1: 4105 opt: 4105  Z-score: 2059.9  bits: 391.2 E(85289): 5.4e-108
Smith-Waterman score: 4105; 100.0% identity (100.0% similar) in 600 aa overlap (1-600:1-600)

               10        20        30        40        50        60
pF1KB7 MTAAPASPQQIRDRLLQAIDPQSNIRNMVAVLEVISSLEKYPITKEALEETRLGKLINDV
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 MTAAPASPQQIRDRLLQAIDPQSNIRNMVAVLEVISSLEKYPITKEALEETRLGKLINDV
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KB7 RKKTKNEELAKRAKKLLRSWQKLIEPAHQHEAALRGLAGATGSANGGAHNCRPEVGAAGP
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 RKKTKNEELAKRAKKLLRSWQKLIEPAHQHEAALRGLAGATGSANGGAHNCRPEVGAAGP
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KB7 PRSIHDLKSRNDLQRLPGQRLDRLGSRKRRGDQRDLGHPGPPPKVSKASHDPLVPNSSPL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 PRSIHDLKSRNDLQRLPGQRLDRLGSRKRRGDQRDLGHPGPPPKVSKASHDPLVPNSSPL
              130       140       150       160       170       180

              190       200       210       220       230       240
pF1KB7 PTNGISGSPESFASSLDGSGHAGPEGSRLERDENDKHSGKIPVNAVRPHTSSPGLGKPPG
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 PTNGISGSPESFASSLDGSGHAGPEGSRLERDENDKHSGKIPVNAVRPHTSSPGLGKPPG
              190       200       210       220       230       240

              250       260       270       280       290       300
pF1KB7 PCLQPKASVLQQLDRVDETPGPPHPKGPPRCSFSPRNSRHEGSFARQQSLYAPKGSVPSP
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 PCLQPKASVLQQLDRVDETPGPPHPKGPPRCSFSPRNSRHEGSFARQQSLYAPKGSVPSP
              250       260       270       280       290       300

              310       320       330       340       350       360
pF1KB7 SPRPQALDATQVPSPLPLAQPSTPPVRRLELLPSAESPVCWLEQPESHQRLAGPGCKAGL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 SPRPQALDATQVPSPLPLAQPSTPPVRRLELLPSAESPVCWLEQPESHQRLAGPGCKAGL
              310       320       330       340       350       360

              370       380       390       400       410       420
pF1KB7 SPAEPLLSRAGFSPDSSKADSDAASSGGSDSKKKKRYRPRDYTVNLDGQVAEAGVKPVRL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 SPAEPLLSRAGFSPDSSKADSDAASSGGSDSKKKKRYRPRDYTVNLDGQVAEAGVKPVRL
              370       380       390       400       410       420

              430       440       450       460       470       480
pF1KB7 KERKLTFDPMTRQIKPLTQKEPVRADSPVHMEQQSRTELDKQEAKASLQSPFEQTNWKEL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 KERKLTFDPMTRQIKPLTQKEPVRADSPVHMEQQSRTELDKQEAKASLQSPFEQTNWKEL
              430       440       450       460       470       480

              490       500       510       520       530       540
pF1KB7 SRNEIIQSYLSRQSSLLSSSGAQTPGAHHFMSEYLKQEESTRQGARQLHVLVPQSPPTDL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 SRNEIIQSYLSRQSSLLSSSGAQTPGAHHFMSEYLKQEESTRQGARQLHVLVPQSPPTDL
              490       500       510       520       530       540

              550       560       570       580       590       600
pF1KB7 PGLTREVTQDDLDRIQASQWPGVNGCQDTQGNWYDWTQCISLDPHGDDGRLNILPYVCLD
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 PGLTREVTQDDLDRIQASQWPGVNGCQDTQGNWYDWTQCISLDPHGDDGRLNILPYVCLD
              550       560       570       580       590       600




600 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Fri Nov  4 22:27:03 2016 done: Fri Nov  4 22:27:05 2016
 Total Scan time: 13.190 Total Display time: -0.020

Function used was FASTA [36.3.4 Apr, 2011]