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: pF1KE5303, 263 aa
  1>>>pF1KE5303 263 - 263 aa - 263 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 4.9741+/-0.000396; mu= 16.2898+/- 0.025
 mean_var=60.1509+/-12.538, 0's: 0 Z-trim(110.9): 21  B-trim: 998 in 1/49
 Lambda= 0.165369
 statistics sampled from 19350 (19361) to 19350 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.609), E-opt: 0.2 (0.227), width:  16
 Scan time:  4.170

The best scores are:                                      opt bits E(85289)
NP_000999 (OMIM: 470000) 40S ribosomal protein S4, ( 263) 1756 427.5 1.2e-119
XP_016885550 (OMIM: 470000) PREDICTED: 40S ribosom ( 272) 1749 425.8  4e-119
NP_001034656 (OMIM: 400030,415000) 40S ribosomal p ( 263) 1671 407.2 1.5e-113
NP_000998 (OMIM: 312760) 40S ribosomal protein S4, ( 263) 1668 406.5 2.5e-113


>>NP_000999 (OMIM: 470000) 40S ribosomal protein S4, Y i  (263 aa)
 initn: 1756 init1: 1756 opt: 1756  Z-score: 2269.0  bits: 427.5 E(85289): 1.2e-119
Smith-Waterman score: 1756; 100.0% identity (100.0% similar) in 263 aa overlap (1-263:1-263)

               10        20        30        40        50        60
pF1KE5 MARGPKKHLKRVAAPKHWMLDKLTGVFAPRPSTGPHKLRECLPLIVFLRNRLKYALTGDE
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_000 MARGPKKHLKRVAAPKHWMLDKLTGVFAPRPSTGPHKLRECLPLIVFLRNRLKYALTGDE
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KE5 VKKICMQRFIKIDGKVRVDVTYPAGFMDVISIEKTGEHFRLVYDTKGRFAVHRITVEEAK
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_000 VKKICMQRFIKIDGKVRVDVTYPAGFMDVISIEKTGEHFRLVYDTKGRFAVHRITVEEAK
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KE5 YKLCKVRKITVGVKGIPHLVTHDARTIRYPDPVIKVNDTVQIDLGTGKIINFIKFDTGNL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_000 YKLCKVRKITVGVKGIPHLVTHDARTIRYPDPVIKVNDTVQIDLGTGKIINFIKFDTGNL
              130       140       150       160       170       180

              190       200       210       220       230       240
pF1KE5 CMVIGGANLGRVGVITNRERHPGSFDVVHVKDANGNSFATRLSNIFVIGNGNKPWISLPR
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_000 CMVIGGANLGRVGVITNRERHPGSFDVVHVKDANGNSFATRLSNIFVIGNGNKPWISLPR
              190       200       210       220       230       240

              250       260   
pF1KE5 GKGIRLTVAEERDKRLATKQSSG
       :::::::::::::::::::::::
NP_000 GKGIRLTVAEERDKRLATKQSSG
              250       260   

>>XP_016885550 (OMIM: 470000) PREDICTED: 40S ribosomal p  (272 aa)
 initn: 1749 init1: 1749 opt: 1749  Z-score: 2259.7  bits: 425.8 E(85289): 4e-119
Smith-Waterman score: 1749; 100.0% identity (100.0% similar) in 262 aa overlap (2-263:11-272)

                        10        20        30        40        50 
pF1KE5          MARGPKKHLKRVAAPKHWMLDKLTGVFAPRPSTGPHKLRECLPLIVFLRNR
                 ::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 MLGRPAKFSKARGPKKHLKRVAAPKHWMLDKLTGVFAPRPSTGPHKLRECLPLIVFLRNR
               10        20        30        40        50        60

              60        70        80        90       100       110 
pF1KE5 LKYALTGDEVKKICMQRFIKIDGKVRVDVTYPAGFMDVISIEKTGEHFRLVYDTKGRFAV
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 LKYALTGDEVKKICMQRFIKIDGKVRVDVTYPAGFMDVISIEKTGEHFRLVYDTKGRFAV
               70        80        90       100       110       120

             120       130       140       150       160       170 
pF1KE5 HRITVEEAKYKLCKVRKITVGVKGIPHLVTHDARTIRYPDPVIKVNDTVQIDLGTGKIIN
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 HRITVEEAKYKLCKVRKITVGVKGIPHLVTHDARTIRYPDPVIKVNDTVQIDLGTGKIIN
              130       140       150       160       170       180

             180       190       200       210       220       230 
pF1KE5 FIKFDTGNLCMVIGGANLGRVGVITNRERHPGSFDVVHVKDANGNSFATRLSNIFVIGNG
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_016 FIKFDTGNLCMVIGGANLGRVGVITNRERHPGSFDVVHVKDANGNSFATRLSNIFVIGNG
              190       200       210       220       230       240

             240       250       260   
pF1KE5 NKPWISLPRGKGIRLTVAEERDKRLATKQSSG
       ::::::::::::::::::::::::::::::::
XP_016 NKPWISLPRGKGIRLTVAEERDKRLATKQSSG
              250       260       270  

>>NP_001034656 (OMIM: 400030,415000) 40S ribosomal prote  (263 aa)
 initn: 1671 init1: 1671 opt: 1671  Z-score: 2159.4  bits: 407.2 E(85289): 1.5e-113
Smith-Waterman score: 1671; 93.9% identity (98.9% similar) in 263 aa overlap (1-263:1-263)

               10        20        30        40        50        60
pF1KE5 MARGPKKHLKRVAAPKHWMLDKLTGVFAPRPSTGPHKLRECLPLIVFLRNRLKYALTGDE
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 MARGPKKHLKRVAAPKHWMLDKLTGVFAPRPSTGPHKLRECLPLIVFLRNRLKYALTGDE
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KE5 VKKICMQRFIKIDGKVRVDVTYPAGFMDVISIEKTGEHFRLVYDTKGRFAVHRITVEEAK
       :::::::.:.:::::::::.::::::.::::::::::::::::.::: ::::::::::::
NP_001 VKKICMQHFLKIDGKVRVDITYPAGFIDVISIEKTGEHFRLVYNTKGCFAVHRITVEEAK
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KE5 YKLCKVRKITVGVKGIPHLVTHDARTIRYPDPVIKVNDTVQIDLGTGKIINFIKFDTGNL
       ::::::::::::.:::::::::::::::::::.:::::::::::::::: .::::::::.
NP_001 YKLCKVRKITVGTKGIPHLVTHDARTIRYPDPLIKVNDTVQIDLGTGKITSFIKFDTGNV
              130       140       150       160       170       180

              190       200       210       220       230       240
pF1KE5 CMVIGGANLGRVGVITNRERHPGSFDVVHVKDANGNSFATRLSNIFVIGNGNKPWISLPR
       ::::.::::::::::::::::::: ::::::::::::::::.::::::::::::::::::
NP_001 CMVIAGANLGRVGVITNRERHPGSCDVVHVKDANGNSFATRISNIFVIGNGNKPWISLPR
              190       200       210       220       230       240

              250       260   
pF1KE5 GKGIRLTVAEERDKRLATKQSSG
       :::::::.:::::::::.:::::
NP_001 GKGIRLTIAEERDKRLAAKQSSG
              250       260   

>>NP_000998 (OMIM: 312760) 40S ribosomal protein S4, X i  (263 aa)
 initn: 1668 init1: 1668 opt: 1668  Z-score: 2155.5  bits: 406.5 E(85289): 2.5e-113
Smith-Waterman score: 1668; 92.8% identity (98.1% similar) in 263 aa overlap (1-263:1-263)

               10        20        30        40        50        60
pF1KE5 MARGPKKHLKRVAAPKHWMLDKLTGVFAPRPSTGPHKLRECLPLIVFLRNRLKYALTGDE
       :::::::::::::::::::::::::::::::::::::::::::::.::::::::::::::
NP_000 MARGPKKHLKRVAAPKHWMLDKLTGVFAPRPSTGPHKLRECLPLIIFLRNRLKYALTGDE
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KE5 VKKICMQRFIKIDGKVRVDVTYPAGFMDVISIEKTGEHFRLVYDTKGRFAVHRITVEEAK
       :::::::::::::::::.:.::::::::::::.::::.:::.::::::::::::: ::::
NP_000 VKKICMQRFIKIDGKVRTDITYPAGFMDVISIDKTGENFRLIYDTKGRFAVHRITPEEAK
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KE5 YKLCKVRKITVGVKGIPHLVTHDARTIRYPDPVIKVNDTVQIDLGTGKIINFIKFDTGNL
       ::::::::: ::.:::::::::::::::::::.::::::.:::: :::: .:::::::::
NP_000 YKLCKVRKIFVGTKGIPHLVTHDARTIRYPDPLIKVNDTIQIDLETGKITDFIKFDTGNL
              130       140       150       160       170       180

              190       200       210       220       230       240
pF1KE5 CMVIGGANLGRVGVITNRERHPGSFDVVHVKDANGNSFATRLSNIFVIGNGNKPWISLPR
       ::: :::::::.:::::::::::::::::::::::::::::::::::::.::::::::::
NP_000 CMVTGGANLGRIGVITNRERHPGSFDVVHVKDANGNSFATRLSNIFVIGKGNKPWISLPR
              190       200       210       220       230       240

              250       260   
pF1KE5 GKGIRLTVAEERDKRLATKQSSG
       :::::::.:::::::::.:::::
NP_000 GKGIRLTIAEERDKRLAAKQSSG
              250       260   




263 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Tue Nov  8 07:29:15 2016 done: Tue Nov  8 07:29:16 2016
 Total Scan time:  4.170 Total Display time: -0.030

Function used was FASTA [36.3.4 Apr, 2011]