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: pF1KE5340, 263 aa
  1>>>pF1KE5340 263 - 263 aa - 263 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 4.8576+/-0.000368; mu= 17.0457+/- 0.023
 mean_var=60.7304+/-12.189, 0's: 0 Z-trim(111.3): 38  B-trim: 0 in 0/53
 Lambda= 0.164578
 statistics sampled from 19810 (19823) to 19810 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.618), E-opt: 0.2 (0.232), width:  16
 Scan time:  5.390

The best scores are:                                      opt bits E(85289)
NP_000998 (OMIM: 312760) 40S ribosomal protein S4, ( 263) 1761 426.7 2.1e-119
NP_000999 (OMIM: 470000) 40S ribosomal protein S4, ( 263) 1668 404.6 9.5e-113
XP_016885550 (OMIM: 470000) PREDICTED: 40S ribosom ( 272) 1661 402.9 3.1e-112
NP_001034656 (OMIM: 400030,415000) 40S ribosomal p ( 263) 1631 395.8 4.2e-110


>>NP_000998 (OMIM: 312760) 40S ribosomal protein S4, X i  (263 aa)
 initn: 1761 init1: 1761 opt: 1761  Z-score: 2264.5  bits: 426.7 E(85289): 2.1e-119
Smith-Waterman score: 1761; 100.0% identity (100.0% similar) in 263 aa overlap (1-263:1-263)

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

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

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

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

              250       260   
pF1KE5 GKGIRLTIAEERDKRLAAKQSSG
       :::::::::::::::::::::::
NP_000 GKGIRLTIAEERDKRLAAKQSSG
              250       260   

>>NP_000999 (OMIM: 470000) 40S ribosomal protein S4, Y i  (263 aa)
 initn: 1668 init1: 1668 opt: 1668  Z-score: 2145.2  bits: 404.6 E(85289): 9.5e-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 MARGPKKHLKRVAAPKHWMLDKLTGVFAPRPSTGPHKLRECLPLIIFLRNRLKYALTGDE
       :::::::::::::::::::::::::::::::::::::::::::::.::::::::::::::
NP_000 MARGPKKHLKRVAAPKHWMLDKLTGVFAPRPSTGPHKLRECLPLIVFLRNRLKYALTGDE
               10        20        30        40        50        60

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

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

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

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

>>XP_016885550 (OMIM: 470000) PREDICTED: 40S ribosomal p  (272 aa)
 initn: 1661 init1: 1661 opt: 1661  Z-score: 2136.0  bits: 402.9 E(85289): 3.1e-112
Smith-Waterman score: 1661; 92.7% identity (98.1% similar) in 262 aa overlap (2-263:11-272)

                        10        20        30        40        50 
pF1KE5          MARGPKKHLKRVAAPKHWMLDKLTGVFAPRPSTGPHKLRECLPLIIFLRNR
                 ::::::::::::::::::::::::::::::::::::::::::::.:::::
XP_016 MLGRPAKFSKARGPKKHLKRVAAPKHWMLDKLTGVFAPRPSTGPHKLRECLPLIVFLRNR
               10        20        30        40        50        60

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

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

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

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

>>NP_001034656 (OMIM: 400030,415000) 40S ribosomal prote  (263 aa)
 initn: 1631 init1: 1631 opt: 1631  Z-score: 2097.7  bits: 395.8 E(85289): 4.2e-110
Smith-Waterman score: 1631; 91.6% identity (97.7% similar) in 263 aa overlap (1-263:1-263)

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

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

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

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

              250       260   
pF1KE5 GKGIRLTIAEERDKRLAAKQSSG
       :::::::::::::::::::::::
NP_001 GKGIRLTIAEERDKRLAAKQSSG
              250       260   




263 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Mon Nov  7 23:56:09 2016 done: Mon Nov  7 23:56:10 2016
 Total Scan time:  5.390 Total Display time: -0.020

Function used was FASTA [36.3.4 Apr, 2011]