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: pF1KB3778, 243 aa
  1>>>pF1KB3778 243 - 243 aa - 243 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 12.1478+/-0.000352; mu= -16.5646+/- 0.022
 mean_var=346.1735+/-69.732, 0's: 0 Z-trim(125.2): 8  B-trim: 0 in 0/60
 Lambda= 0.068933
 statistics sampled from 48505 (48524) to 48505 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.823), E-opt: 0.2 (0.569), width:  16
 Scan time:  7.140

The best scores are:                                      opt bits E(85289)
NP_073568 (OMIM: 611912) nuclear ubiquitous casein ( 243) 1608 172.4 6.3e-43
XP_005245510 (OMIM: 611912) PREDICTED: nuclear ubi ( 242) 1584 170.0 3.3e-42


>>NP_073568 (OMIM: 611912) nuclear ubiquitous casein and  (243 aa)
 initn: 1608 init1: 1608 opt: 1608  Z-score: 891.7  bits: 172.4 E(85289): 6.3e-43
Smith-Waterman score: 1608; 100.0% identity (100.0% similar) in 243 aa overlap (1-243:1-243)

               10        20        30        40        50        60
pF1KB3 MSRPVRNRKVVDYSQFQESDDADEDYGRDSGPPTKKIRSSPREAKNKRRSGKNSQEDSED
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_073 MSRPVRNRKVVDYSQFQESDDADEDYGRDSGPPTKKIRSSPREAKNKRRSGKNSQEDSED
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KB3 SEDKDVKTKKDDSHSAEDSEDEKEDHKNVRQQRQAASKAASKQREMLMEDVGSEEEQEEE
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_073 SEDKDVKTKKDDSHSAEDSEDEKEDHKNVRQQRQAASKAASKQREMLMEDVGSEEEQEEE
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KB3 DEAPFQEKDSGSDEDFLMEDDDDSDYGSSKKKNKKMVKKSKPERKEKKMPKPRLKATVTP
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_073 DEAPFQEKDSGSDEDFLMEDDDDSDYGSSKKKNKKMVKKSKPERKEKKMPKPRLKATVTP
              130       140       150       160       170       180

              190       200       210       220       230       240
pF1KB3 SPVKGKGKVGRPTASKASKEKTPSPKEEDEEPESPPEKKTSTSPPPEKSGDEGSEDEAPS
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_073 SPVKGKGKVGRPTASKASKEKTPSPKEEDEEPESPPEKKTSTSPPPEKSGDEGSEDEAPS
              190       200       210       220       230       240

          
pF1KB3 GED
       :::
NP_073 GED
          

>>XP_005245510 (OMIM: 611912) PREDICTED: nuclear ubiquit  (242 aa)
 initn: 1104 init1: 892 opt: 1584  Z-score: 878.8  bits: 170.0 E(85289): 3.3e-42
Smith-Waterman score: 1584; 99.2% identity (99.6% similar) in 243 aa overlap (1-243:1-242)

               10        20        30        40        50        60
pF1KB3 MSRPVRNRKVVDYSQFQESDDADEDYGRDSGPPTKKIRSSPREAKNKRRSGKNSQEDSED
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_005 MSRPVRNRKVVDYSQFQESDDADEDYGRDSGPPTKKIRSSPREAKNKRRSGKNSQEDSED
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KB3 SEDKDVKTKKDDSHSAEDSEDEKEDHKNVRQQRQAASKAASKQREMLMEDVGSEEEQEEE
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_005 SEDKDVKTKKDDSHSAEDSEDEKEDHKNVRQQRQAASKAASKQREMLMEDVGSEEEQEEE
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KB3 DEAPFQEKDSGSDEDFLMEDDDDSDYGSSKKKNKKMVKKSKPERKEKKMPKPRLKATVTP
       ::::::: .:::::::::::::::::::::::::::::::::::::::::::::::::::
XP_005 DEAPFQE-NSGSDEDFLMEDDDDSDYGSSKKKNKKMVKKSKPERKEKKMPKPRLKATVTP
               130       140       150       160       170         

              190       200       210       220       230       240
pF1KB3 SPVKGKGKVGRPTASKASKEKTPSPKEEDEEPESPPEKKTSTSPPPEKSGDEGSEDEAPS
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
XP_005 SPVKGKGKVGRPTASKASKEKTPSPKEEDEEPESPPEKKTSTSPPPEKSGDEGSEDEAPS
     180       190       200       210       220       230         

          
pF1KB3 GED
       :::
XP_005 GED
     240  




243 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Sat Nov  5 05:22:50 2016 done: Sat Nov  5 05:22:52 2016
 Total Scan time:  7.140 Total Display time: -0.040

Function used was FASTA [36.3.4 Apr, 2011]