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: pF1KB5530, 120 aa
  1>>>pF1KB5530 120 - 120 aa - 120 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 5.5334+/-0.000253; mu= 10.5144+/- 0.016
 mean_var=73.8380+/-14.789, 0's: 0 Z-trim(121.6): 3  B-trim: 0 in 0/53
 Lambda= 0.149257
 statistics sampled from 38454 (38457) to 38454 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.811), E-opt: 0.2 (0.451), width:  16
 Scan time:  4.970

The best scores are:                                      opt bits E(85289)
NP_004087 (OMIM: 602224) eukaryotic translation in ( 120)  817 183.8 5.9e-47
NP_004086 (OMIM: 602223) eukaryotic translation in ( 118)  415 97.2 6.7e-21
NP_003723 (OMIM: 603483) eukaryotic translation in ( 100)  364 86.2 1.2e-17


>>NP_004087 (OMIM: 602224) eukaryotic translation initia  (120 aa)
 initn: 817 init1: 817 opt: 817  Z-score: 963.9  bits: 183.8 E(85289): 5.9e-47
Smith-Waterman score: 817; 100.0% identity (100.0% similar) in 120 aa overlap (1-120:1-120)

               10        20        30        40        50        60
pF1KB5 MSSSAGSGHQPSQSRAIPTRTVAISDAAQLPHDYCTTPGGTLFSTTPGGTRIIYDRKFLL
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 MSSSAGSGHQPSQSRAIPTRTVAISDAAQLPHDYCTTPGGTLFSTTPGGTRIIYDRKFLL
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KB5 DRRNSPMAQTPPCHLPNIPGVTSPGTLIEDSKVEVNNLNNLNNHDRKHAVGDDAQFEMDI
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 DRRNSPMAQTPPCHLPNIPGVTSPGTLIEDSKVEVNNLNNLNNHDRKHAVGDDAQFEMDI
               70        80        90       100       110       120

>>NP_004086 (OMIM: 602223) eukaryotic translation initia  (118 aa)
 initn: 475 init1: 319 opt: 415  Z-score: 496.2  bits: 97.2 E(85289): 6.7e-21
Smith-Waterman score: 415; 57.1% identity (82.4% similar) in 119 aa overlap (4-120:2-118)

               10         20        30         40        50        
pF1KB5 MSSSAGSGHQPSQSRAIP-TRTVAISDAAQLPH-DYCTTPGGTLFSTTPGGTRIIYDRKF
          :.::. . . ::::: :: :...:..:::  :: :::::::::::::::::::::::
NP_004   MSGGSSCSQTPSRAIPATRRVVLGDGVQLPPGDYSTTPGGTLFSTTPGGTRIIYDRKF
                 10        20        30        40        50        

       60        70        80        90       100       110        
pF1KB5 LLDRRNSPMAQTPPCHLPNIPGVTSPGTLIEDSKVEVNNLNNLNNHDRKHAVGDDAQFEM
       :.. ::::...:::  ::.:::::::..  ..  .:... .  :. . :.: :...::::
NP_004 LMECRNSPVTKTPPRDLPTIPGVTSPSS--DEPPMEASQSHLRNSPEDKRAGGEESQFEM
       60        70        80          90       100       110      

      120
pF1KB5 DI
       ::
NP_004 DI
         

>>NP_003723 (OMIM: 603483) eukaryotic translation initia  (100 aa)
 initn: 449 init1: 309 opt: 364  Z-score: 437.9  bits: 86.2 E(85289): 1.2e-17
Smith-Waterman score: 364; 59.8% identity (82.6% similar) in 92 aa overlap (29-120:15-100)

               10        20        30        40        50        60
pF1KB5 MSSSAGSGHQPSQSRAIPTRTVAISDAAQLPHDYCTTPGGTLFSTTPGGTRIIYDRKFLL
                                   :::  : :::::::..::::::::::::::::
NP_003               MSTSTSCPIPGGRDQLPDCYSTTPGGTLYATTPGGTRIIYDRKFLL
                             10        20        30        40      

               70        80        90       100       110       120
pF1KB5 DRRNSPMAQTPPCHLPNIPGVTSPGTLIEDSKVEVNNLNNLNNHDRKHAVGDDAQFEMDI
       . .:::.:.:::: ::.:::::.: :      . ...:..:.... .. . :::::::::
NP_003 ECKNSPIARTPPCCLPQIPGVTTPPT------APLSKLEELKEQETEEEIPDDAQFEMDI
         50        60        70              80        90       100




120 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Thu Nov  3 22:39:23 2016 done: Thu Nov  3 22:39:23 2016
 Total Scan time:  4.970 Total Display time: -0.020

Function used was FASTA [36.3.4 Apr, 2011]