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: pF1KSDA0108, 233 aa
  1>>>pF1KSDA0108 233 - 233 aa - 233 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 5.1202+/-0.00029; mu= 16.5472+/- 0.018
 mean_var=76.5197+/-15.226, 0's: 0 Z-trim(118.5): 19  B-trim: 153 in 1/54
 Lambda= 0.146618
 statistics sampled from 31505 (31524) to 31505 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.724), E-opt: 0.2 (0.37), width:  16
 Scan time:  4.710

The best scores are:                                      opt bits E(85289)
NP_060877 (OMIM: 613296) lysosomal-associated tran ( 317)  720 161.0 2.2e-39
XP_011540400 (OMIM: 601476) PREDICTED: lysosomal-a ( 205)  218 54.7 1.4e-07


>>NP_060877 (OMIM: 613296) lysosomal-associated transmem  (317 aa)
 initn: 738 init1: 300 opt: 720  Z-score: 828.2  bits: 161.0 E(85289): 2.2e-39
Smith-Waterman score: 720; 45.5% identity (75.9% similar) in 224 aa overlap (13-233:100-317)

                                 10        20        30        40  
pF1KSD                   MVSMSFKRNRSDRFYSTRCCGCCHVRTGTIILGTWYMVVNLL
                                     ::::. :: :::::::::.::.::...: .
NP_060 LQARRSTLLKTCARARATAPGAMKMVAPWTRFYSNSCCLCCHVRTGTILLGVWYLIINAV
      70        80        90       100       110       120         

             50        60        70         80        90       100 
pF1KSD MAILLTVEVTHPNSMPAVNIQYEVIGNYYSSERMAD-NACVLFAVSVLMFIISSMLVYGA
       . ..:   .. :...   :..   .:. .  : : : : :. .:.:.::..: .: .:::
NP_060 VLLILLSALADPDQY---NFSSSELGGDF--EFMDDANMCIAIAISLLMILICAMATYGA
     130       140          150         160       170       180    

             110       120       130       140        150       160
pF1KSD ISYQVGWLIPFFCYRLFDFVLSCLVAISSLTYLPRIKEYLDQLP-DFPYKDDLLALDSSC
        . ...:.::::::..:::.:. ::::. : :   :.::. ::: .:::.::..... .:
NP_060 YKQRAAWIIPFFCYQIFDFALNMLVAITVLIYPNSIQEYIRQLPPNFPYRDDVMSVNPTC
          190       200       210       220       230       240    

              170       180       190       200       210          
pF1KSD LLFIVLVFFALFIIFKAYLINCVWNCYKYINNRNVPEIAVYPAFEAPPQYVLPTYEMA-V
       :..:.:.:..... ::.:::.::::::.:::.::  .. :: .       .:: :. : :
NP_060 LVLIILLFISIILTFKGYLISCVWNCYRYINGRNSSDVLVY-VTSNDTTVLLPPYDDATV
          250       260       270       280        290       300   

     220       230   
pF1KSD KMPEKEPPPPYLPA
       .   :::::::. :
NP_060 NGAAKEPPPPYVSA
           310       

>>XP_011540400 (OMIM: 601476) PREDICTED: lysosomal-assoc  (205 aa)
 initn: 197 init1:  93 opt: 218  Z-score: 256.9  bits: 54.7 E(85289): 1.4e-07
Smith-Waterman score: 218; 31.2% identity (58.6% similar) in 128 aa overlap (111-230:78-202)

               90       100       110       120       130       140
pF1KSD CVLFAVSVLMFIISSMLVYGAISYQVGWLIPFFCYRLFDFVLSCLVAISSLTYLPRIKEY
                                     :..  .:.:: :: :.  ::   .:   ..
XP_011 LCLLTLLGSYIELPAYLKLASRSRASSSKFPLMTLQLLDFCLSILTLCSSYMEVPTYLNF
        50        60        70        80        90       100       

                150       160       170       180       190        
pF1KSD --LDQLPDFPYKDDLLALDSSCLLFIVLVFFALFIIFKAYLINCVWNCYKYINNRN-VPE
         ....  .: ..:.   .   ...:  . :   .:::.:...::: ::. :.  : : :
XP_011 KSMNHMNYLPSQEDMPHNQFIKMMIIFSIAFITVLIFKVYMFKCVWRCYRLIKCMNSVEE
       110       120       130       140       150       160       

       200       210       220            230   
pF1KSD IAVYPAFEAPPQYVLPTYEMAVKMPEKEP-----PPPYLPA
             ..   . :::.:: :...: : :     ::::   
XP_011 KRNSKMLQ---KVVLPSYEEALSLPSKTPEGGPAPPPYSEV
       170          180       190       200     




233 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Thu Nov  3 00:01:20 2016 done: Thu Nov  3 00:01:21 2016
 Total Scan time:  4.710 Total Display time: -0.010

Function used was FASTA [36.3.4 Apr, 2011]