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: pF1KE0551, 287 aa
  1>>>pF1KE0551 287 - 287 aa - 287 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 5.2823+/-0.000359; mu= 14.5680+/- 0.022
 mean_var=57.2852+/-11.786, 0's: 0 Z-trim(112.3): 20  B-trim: 0 in 0/53
 Lambda= 0.169455
 statistics sampled from 21197 (21211) to 21197 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.635), E-opt: 0.2 (0.249), width:  16
 Scan time:  6.130

The best scores are:                                      opt bits E(85289)
NP_008884 (OMIM: 611559) uroplakin-3a isoform 1 pr ( 287) 1879 467.7 1.2e-131
NP_001161046 (OMIM: 611559) uroplakin-3a isoform 2 ( 166)  621 160.0 2.7e-39
NP_872625 (OMIM: 611887) uroplakin-3b isoform b pr ( 276)  274 75.3 1.5e-13


>>NP_008884 (OMIM: 611559) uroplakin-3a isoform 1 precur  (287 aa)
 initn: 1879 init1: 1879 opt: 1879  Z-score: 2484.7  bits: 467.7 E(85289): 1.2e-131
Smith-Waterman score: 1879; 100.0% identity (100.0% similar) in 287 aa overlap (1-287:1-287)

               10        20        30        40        50        60
pF1KE0 MPPLWALLALGCLRFGSAVNLQPQLASVTFATNNPTLTTVALEKPLCMFDSKEALTGTHE
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_008 MPPLWALLALGCLRFGSAVNLQPQLASVTFATNNPTLTTVALEKPLCMFDSKEALTGTHE
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KE0 VYLYVLVDSAISRNASVQDSTNTPLGSTFLQTEGGRTGPYKAVAFDLIPCSDLPSLDAIG
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_008 VYLYVLVDSAISRNASVQDSTNTPLGSTFLQTEGGRTGPYKAVAFDLIPCSDLPSLDAIG
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KE0 DVSKASQILNAYLVRVGANGTCLWDPNFQGLCNAPLSAATEYRFKYVLVNMSTGLVEDQT
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_008 DVSKASQILNAYLVRVGANGTCLWDPNFQGLCNAPLSAATEYRFKYVLVNMSTGLVEDQT
              130       140       150       160       170       180

              190       200       210       220       230       240
pF1KE0 LWSDPIRTNQLTPYSTIDTWPGRRSGGMIVITSILGSLPFFLLVGFAGAIALSLVDMGSS
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_008 LWSDPIRTNQLTPYSTIDTWPGRRSGGMIVITSILGSLPFFLLVGFAGAIALSLVDMGSS
              190       200       210       220       230       240

              250       260       270       280       
pF1KE0 DGETTHDSQITQEAVPKSLGASESSYTSVNRGPPLDRAEVYSSKLQD
       :::::::::::::::::::::::::::::::::::::::::::::::
NP_008 DGETTHDSQITQEAVPKSLGASESSYTSVNRGPPLDRAEVYSSKLQD
              250       260       270       280       

>>NP_001161046 (OMIM: 611559) uroplakin-3a isoform 2 pre  (166 aa)
 initn: 621 init1: 621 opt: 621  Z-score: 826.4  bits: 160.0 E(85289): 2.7e-39
Smith-Waterman score: 818; 57.5% identity (57.8% similar) in 287 aa overlap (1-287:1-166)

               10        20        30        40        50        60
pF1KE0 MPPLWALLALGCLRFGSAVNLQPQLASVTFATNNPTLTTVALEKPLCMFDSKEALTGTHE
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 MPPLWALLALGCLRFGSAVNLQPQLASVTFATNNPTLTTVALEKPLCMFDSKEALTGTHE
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KE0 VYLYVLVDSAISRNASVQDSTNTPLGSTFLQTEGGRTGPYKAVAFDLIPCSDLPSLDAIG
       :::::::::                                                   
NP_001 VYLYVLVDS---------------------------------------------------
                                                                   

              130       140       150       160       170       180
pF1KE0 DVSKASQILNAYLVRVGANGTCLWDPNFQGLCNAPLSAATEYRFKYVLVNMSTGLVEDQT
                                                                   
NP_001 ------------------------------------------------------------
                                                                   

              190       200       210       220       230       240
pF1KE0 LWSDPIRTNQLTPYSTIDTWPGRRSGGMIVITSILGSLPFFLLVGFAGAIALSLVDMGSS
                 .:::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 ----------VTPYSTIDTWPGRRSGGMIVITSILGSLPFFLLVGFAGAIALSLVDMGSS
                70        80        90       100       110         

              250       260       270       280       
pF1KE0 DGETTHDSQITQEAVPKSLGASESSYTSVNRGPPLDRAEVYSSKLQD
       :::::::::::::::::::::::::::::::::::::::::::::::
NP_001 DGETTHDSQITQEAVPKSLGASESSYTSVNRGPPLDRAEVYSSKLQD
     120       130       140       150       160      

>>NP_872625 (OMIM: 611887) uroplakin-3b isoform b precur  (276 aa)
 initn: 331 init1: 191 opt: 274  Z-score: 364.4  bits: 75.3 E(85289): 1.5e-13
Smith-Waterman score: 368; 36.3% identity (59.8% similar) in 234 aa overlap (7-237:16-227)

                        10        20        30          40         
pF1KE0          MPPLWALLALGCLRFGSAVNLQPQLASVTF--ATNNPTLTTVALEKPLCMF
                      ::::.::: . ...: :   ..:     .. : :: .::.: :.:
NP_872 MGLPWGQPHLGLQMLLLALNCLRPSLSLELVPYTPQITAWDLEGKVTATTFSLEQPRCVF
               10        20        30        40        50        60

      50        60        70        80        90        100        
pF1KE0 DSKEALTGTHEVYLYVLVDSAISRNASVQDSTNTPLGSTFLQTEGGR-TGPYKAVAFDLI
       :.  . . :  :.: :  ..: ::. .  ..     .:  : :.:   : : .    : .
NP_872 DGLASASDT--VWLVVAFSNA-SRGFQNPETLADIPASPQLLTDGHYMTLPLSP---DQL
                 70         80        90       100       110       

      110       120       130       140       150       160        
pF1KE0 PCSDLPSLDAIGDVSKASQILNAYLVRVGANGTCLWDPNFQGLCNAPLSAATEYRFKYVL
       ::.: :   . :          : ..::: .  :  .:    .::::: .   :: :..:
NP_872 PCGD-PMAGSGG----------APVLRVGHDHGCHQQP----FCNAPLPGPGPYRVKFLL
           120                 130       140           150         

      170       180       190       200       210       220        
pF1KE0 VNMSTGLVEDQTLWSDPIRTNQLTPYSTIDTWPGRRSGGMIVITSILGSLPFFLLVGFAG
       .. . :  . .: :::::  .:    ..::::::::::.::::::::.::  .::..: .
NP_872 MD-TRGSPRAETKWSDPITLHQGKTPGSIDTWPGRRSGSMIVITSILSSLAGLLLLAFLA
     160        170       180       190       200       210        

      230       240       250       260       270       280       
pF1KE0 AIALSLVDMGSSDGETTHDSQITQEAVPKSLGASESSYTSVNRGPPLDRAEVYSSKLQD
       : .. . ..                                                  
NP_872 ASTMRFSSLWWPEEAPEQLRIGSFMGKRYMTHHIPPSEAATLPVGCKPGLDPLPSLSP 
      220       230       240       250       260       270       




287 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Wed Nov  2 23:47:39 2016 done: Wed Nov  2 23:47:40 2016
 Total Scan time:  6.130 Total Display time: -0.030

Function used was FASTA [36.3.4 Apr, 2011]