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: pF1KSDA0085, 262 aa
  1>>>pF1KSDA0085 262 - 262 aa - 262 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 4.8822+/-0.000302; mu= 17.8161+/- 0.019
 mean_var=64.9608+/-12.902, 0's: 0 Z-trim(116.8): 15  B-trim: 0 in 0/54
 Lambda= 0.159129
 statistics sampled from 28263 (28276) to 28263 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.692), E-opt: 0.2 (0.332), width:  16
 Scan time:  4.610

The best scores are:                                      opt bits E(85289)
NP_006753 (OMIM: 601476) lysosomal-associated tran ( 262) 1713 401.4 8.5e-112
XP_011540400 (OMIM: 601476) PREDICTED: lysosomal-a ( 205) 1171 276.9   2e-74
NP_060877 (OMIM: 613296) lysosomal-associated tran ( 317)  165 46.1 9.4e-05


>>NP_006753 (OMIM: 601476) lysosomal-associated transmem  (262 aa)
 initn: 1713 init1: 1713 opt: 1713  Z-score: 2128.1  bits: 401.4 E(85289): 8.5e-112
Smith-Waterman score: 1713; 100.0% identity (100.0% similar) in 262 aa overlap (1-262:1-262)

               10        20        30        40        50        60
pF1KSD MDPRLSTVRQTCCCFNVRIATTALAIYHVIMSVLLFIEHSVEVAHGKASCKLSQMGYLRI
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_006 MDPRLSTVRQTCCCFNVRIATTALAIYHVIMSVLLFIEHSVEVAHGKASCKLSQMGYLRI
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KSD ADLISSFLLITMLFIISLSLLIGVVKNREKYLLPFLSLQIMDYLLCLLTLLGSYIELPAY
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_006 ADLISSFLLITMLFIISLSLLIGVVKNREKYLLPFLSLQIMDYLLCLLTLLGSYIELPAY
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KSD LKLASRSRASSSKFPLMTLQLLDFCLSILTLCSSYMEVPTYLNFKSMNHMNYLPSQEDMP
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_006 LKLASRSRASSSKFPLMTLQLLDFCLSILTLCSSYMEVPTYLNFKSMNHMNYLPSQEDMP
              130       140       150       160       170       180

              190       200       210       220       230       240
pF1KSD HNQFIKMMIIFSIAFITVLIFKVYMFKCVWRCYRLIKCMNSVEEKRNSKMLQKVVLPSYE
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_006 HNQFIKMMIIFSIAFITVLIFKVYMFKCVWRCYRLIKCMNSVEEKRNSKMLQKVVLPSYE
              190       200       210       220       230       240

              250       260  
pF1KSD EALSLPSKTPEGGPAPPPYSEV
       ::::::::::::::::::::::
NP_006 EALSLPSKTPEGGPAPPPYSEV
              250       260  

>>XP_011540400 (OMIM: 601476) PREDICTED: lysosomal-assoc  (205 aa)
 initn: 1357 init1: 1171 opt: 1171  Z-score: 1457.1  bits: 276.9 E(85289): 2e-74
Smith-Waterman score: 1247; 78.2% identity (78.2% similar) in 262 aa overlap (1-262:1-205)

               10        20        30        40        50        60
pF1KSD MDPRLSTVRQTCCCFNVRIATTALAIYHVIMSVLLFIEHSVEVAHGKASCKLSQMGYLRI
       :::::::::::::::::::::::::::::                               
XP_011 MDPRLSTVRQTCCCFNVRIATTALAIYHV-------------------------------
               10        20                                        

               70        80        90       100       110       120
pF1KSD ADLISSFLLITMLFIISLSLLIGVVKNREKYLLPFLSLQIMDYLLCLLTLLGSYIELPAY
                                 ::::::::::::::::::::::::::::::::::
XP_011 --------------------------NREKYLLPFLSLQIMDYLLCLLTLLGSYIELPAY
                                30        40        50        60   

              130       140       150       160       170       180
pF1KSD LKLASRSRASSSKFPLMTLQLLDFCLSILTLCSSYMEVPTYLNFKSMNHMNYLPSQEDMP
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 LKLASRSRASSSKFPLMTLQLLDFCLSILTLCSSYMEVPTYLNFKSMNHMNYLPSQEDMP
            70        80        90       100       110       120   

              190       200       210       220       230       240
pF1KSD HNQFIKMMIIFSIAFITVLIFKVYMFKCVWRCYRLIKCMNSVEEKRNSKMLQKVVLPSYE
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_011 HNQFIKMMIIFSIAFITVLIFKVYMFKCVWRCYRLIKCMNSVEEKRNSKMLQKVVLPSYE
           130       140       150       160       170       180   

              250       260  
pF1KSD EALSLPSKTPEGGPAPPPYSEV
       ::::::::::::::::::::::
XP_011 EALSLPSKTPEGGPAPPPYSEV
           190       200     

>>NP_060877 (OMIM: 613296) lysosomal-associated transmem  (317 aa)
 initn: 181 init1: 100 opt: 165  Z-score: 206.3  bits: 46.1 E(85289): 9.4e-05
Smith-Waterman score: 193; 24.6% identity (51.9% similar) in 264 aa overlap (3-259:97-314)

                                           10         20        30 
pF1KSD                             MDPRLSTVRQTCC-CFNVRIATTALAIYHVIM
                                     :      ..:: : .:: .:  :.....:.
NP_060 RGGLQARRSTLLKTCARARATAPGAMKMVAPWTRFYSNSCCLCCHVRTGTILLGVWYLII
         70        80        90       100       110       120      

               40        50        60         70        80         
pF1KSD S-VLLFIEHSVEVAHGKASCKLSQMGYLRIADLISSFLL-ITMLFIISLSLLIGVVKNRE
       . :.:.:  :. .   . . . :..:    .:.   :.   .: . :..:::.       
NP_060 NAVVLLILLSALADPDQYNFSSSELG----GDF--EFMDDANMCIAIAISLLM-------
        130       140       150             160       170          

      90       100       110       120       130       140         
pF1KSD KYLLPFLSLQIMDYLLCLLTLLGSYIELPAYLKLASRSRASSSKFPLMTLQLLDFCLSIL
                     :.: ..  :.: .  :..            .:..  :..:: :..:
NP_060 -------------ILICAMATYGAYKQRAAWI------------IPFFCYQIFDFALNML
                        180       190                   200        

     150       160       170        180       190       200        
pF1KSD TLCSSYMEVPTYLNFKSMNHMNYLPSQED-MPHNQFIKMMIIFSIAFITVLI-FKVYMFK
       .  .  .   .  ..  .   :. : ..: :  :    ..::  . ::.... :: :...
NP_060 VAITVLIYPNSIQEYIRQLPPNF-PYRDDVMSVNPTCLVLII--LLFISIILTFKGYLIS
      210       220       230        240         250       260     

       210       220        230       240        250       260  
pF1KSD CVWRCYRLIKCMNSVEEK-RNSKMLQKVVLPSYEEA-LSLPSKTPEGGPAPPPYSEV
       ::: ::: :.  :: .     ..    :.:: :..: ..  .: :     ::::   
NP_060 CVWNCYRYINGRNSSDVLVYVTSNDTTVLLPPYDDATVNGAAKEP-----PPPYVSA
         270       280       290       300       310            




262 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Wed Nov  2 23:53:21 2016 done: Wed Nov  2 23:53:22 2016
 Total Scan time:  4.610 Total Display time: -0.040

Function used was FASTA [36.3.4 Apr, 2011]