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: pF1KE6142, 109 aa
  1>>>pF1KE6142 109 - 109 aa - 109 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 4.7357+/-0.000271; mu= 13.1378+/- 0.017
 mean_var=54.9473+/-11.158, 0's: 0 Z-trim(119.8): 18  B-trim: 849 in 1/50
 Lambda= 0.173022
 statistics sampled from 34181 (34199) to 34181 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.783), E-opt: 0.2 (0.401), width:  16
 Scan time:  4.660

The best scores are:                                      opt bits E(85289)
NP_004364 (OMIM: 602072,616039) cytochrome c oxida ( 109)  762 197.1 4.8e-51
NP_005196 (OMIM: 602009) cytochrome c oxidase subu (  97)  388 103.7 5.5e-23


>>NP_004364 (OMIM: 602072,616039) cytochrome c oxidase s  (109 aa)
 initn: 762 init1: 762 opt: 762  Z-score: 1037.4  bits: 197.1 E(85289): 4.8e-51
Smith-Waterman score: 762; 100.0% identity (100.0% similar) in 109 aa overlap (1-109:1-109)

               10        20        30        40        50        60
pF1KE6 MAVVGVSSVSRLLGRSRPQLGRPMSSGAHGEEGSARMWKTLTFFVALPGVAVSMLNVYLK
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 MAVVGVSSVSRLLGRSRPQLGRPMSSGAHGEEGSARMWKTLTFFVALPGVAVSMLNVYLK
               10        20        30        40        50        60

               70        80        90       100         
pF1KE6 SHHGEHERPEFIAYPHLRIRTKPFPWGDGNHTLFHNPHVNPLPTGYEDE
       :::::::::::::::::::::::::::::::::::::::::::::::::
NP_004 SHHGEHERPEFIAYPHLRIRTKPFPWGDGNHTLFHNPHVNPLPTGYEDE
               70        80        90       100         

>>NP_005196 (OMIM: 602009) cytochrome c oxidase subunit   (97 aa)
 initn: 292 init1: 282 opt: 388  Z-score: 533.6  bits: 103.7 E(85289): 5.5e-23
Smith-Waterman score: 388; 63.4% identity (78.5% similar) in 93 aa overlap (17-107:6-95)

               10        20        30          40        50        
pF1KE6 MAVVGVSSVSRLLGRSRPQLGRPMSSGAHGEEGSA--RMWKTLTFFVALPGVAVSMLNVY
                       :: : : ..:.:.: .:.:  : :. ::: .:::.::.  .: :
NP_005            MALPLRP-LTRGLASAAKGGHGGAGARTWRLLTFVLALPSVALCTFNSY
                           10        20        30        40        

       60        70        80        90       100         
pF1KE6 LKSHHGEHERPEFIAYPHLRIRTKPFPWGDGNHTLFHNPHVNPLPTGYEDE
       :  : :.. ::::  : ::::::::.:::::::::::: ::::::::::  
NP_005 L--HSGHRPRPEFRPYQHLRIRTKPYPWGDGNHTLFHNSHVNPLPTGYEHP
         50        60        70        80        90       




109 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Tue Nov  8 09:49:45 2016 done: Tue Nov  8 09:49:45 2016
 Total Scan time:  4.660 Total Display time: -0.030

Function used was FASTA [36.3.4 Apr, 2011]