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: pF1KE5307, 270 aa
  1>>>pF1KE5307 270 - 270 aa - 270 aa
Library: /omim/omim.rfq.tfa
  60827320 residues in 85289 sequences

Statistics:  Expectation_n fit: rho(ln(x))= 6.1398+/-0.000287; mu= 13.2118+/- 0.018
 mean_var=117.5334+/-23.548, 0's: 0 Z-trim(121.5): 18  B-trim: 1155 in 2/53
 Lambda= 0.118302
 statistics sampled from 38199 (38220) to 38199 sequences
Algorithm: FASTA (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -10/-2
 ktup: 2, E-join: 1 (0.79), E-opt: 0.2 (0.448), width:  16
 Scan time:  6.300

The best scores are:                                      opt bits E(85289)
NP_006518 (OMIM: 602422) histone RNA hairpin-bindi ( 270) 1885 331.7 8.5e-91
NP_001293004 (OMIM: 602422) histone RNA hairpin-bi ( 231) 1446 256.8 2.7e-68
NP_001293003 (OMIM: 602422) histone RNA hairpin-bi ( 235) 1224 218.9   7e-57


>>NP_006518 (OMIM: 602422) histone RNA hairpin-binding p  (270 aa)
 initn: 1885 init1: 1885 opt: 1885  Z-score: 1751.1  bits: 331.7 E(85289): 8.5e-91
Smith-Waterman score: 1885; 100.0% identity (100.0% similar) in 270 aa overlap (1-270:1-270)

               10        20        30        40        50        60
pF1KE5 MACRPRSPPRHQSRCDGDASPPSPARWSLGRKRRADGRRWRPEDAEEAEHRGAERRPESF
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_006 MACRPRSPPRHQSRCDGDASPPSPARWSLGRKRRADGRRWRPEDAEEAEHRGAERRPESF
               10        20        30        40        50        60

               70        80        90       100       110       120
pF1KE5 TTPEGPKPRSRCSDWASAVEEDEMRTRVNKEMARYKRKLLINDFGRERKSSSGSSDSKES
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_006 TTPEGPKPRSRCSDWASAVEEDEMRTRVNKEMARYKRKLLINDFGRERKSSSGSSDSKES
               70        80        90       100       110       120

              130       140       150       160       170       180
pF1KE5 MSTVPADFETDESVLMRRQKQINYGKNTIAYDRYIKEVPRHLRQPGIHPKTPNKFKKYSR
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_006 MSTVPADFETDESVLMRRQKQINYGKNTIAYDRYIKEVPRHLRQPGIHPKTPNKFKKYSR
              130       140       150       160       170       180

              190       200       210       220       230       240
pF1KE5 RSWDQQIKLWKVALHFWDPPAEEGCDLQEIHPVDLESAESSSEPQTSSQDDFDVYSGTPT
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_006 RSWDQQIKLWKVALHFWDPPAEEGCDLQEIHPVDLESAESSSEPQTSSQDDFDVYSGTPT
              190       200       210       220       230       240

              250       260       270
pF1KE5 KVRHMDSQVEDEFDLEACLTEPLRDFSAMS
       ::::::::::::::::::::::::::::::
NP_006 KVRHMDSQVEDEFDLEACLTEPLRDFSAMS
              250       260       270

>>NP_001293004 (OMIM: 602422) histone RNA hairpin-bindin  (231 aa)
 initn: 1446 init1: 1446 opt: 1446  Z-score: 1347.0  bits: 256.8 E(85289): 2.7e-68
Smith-Waterman score: 1510; 85.6% identity (85.6% similar) in 270 aa overlap (1-270:1-231)

               10        20        30        40        50        60
pF1KE5 MACRPRSPPRHQSRCDGDASPPSPARWSLGRKRRADGRRWRPEDAEEAEHRGAERRPESF
       ::::::::::::::::::::                                       :
NP_001 MACRPRSPPRHQSRCDGDAS---------------------------------------F
               10        20                                        

               70        80        90       100       110       120
pF1KE5 TTPEGPKPRSRCSDWASAVEEDEMRTRVNKEMARYKRKLLINDFGRERKSSSGSSDSKES
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 TTPEGPKPRSRCSDWASAVEEDEMRTRVNKEMARYKRKLLINDFGRERKSSSGSSDSKES
              30        40        50        60        70        80 

              130       140       150       160       170       180
pF1KE5 MSTVPADFETDESVLMRRQKQINYGKNTIAYDRYIKEVPRHLRQPGIHPKTPNKFKKYSR
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 MSTVPADFETDESVLMRRQKQINYGKNTIAYDRYIKEVPRHLRQPGIHPKTPNKFKKYSR
              90       100       110       120       130       140 

              190       200       210       220       230       240
pF1KE5 RSWDQQIKLWKVALHFWDPPAEEGCDLQEIHPVDLESAESSSEPQTSSQDDFDVYSGTPT
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 RSWDQQIKLWKVALHFWDPPAEEGCDLQEIHPVDLESAESSSEPQTSSQDDFDVYSGTPT
             150       160       170       180       190       200 

              250       260       270
pF1KE5 KVRHMDSQVEDEFDLEACLTEPLRDFSAMS
       ::::::::::::::::::::::::::::::
NP_001 KVRHMDSQVEDEFDLEACLTEPLRDFSAMS
             210       220       230 

>>NP_001293003 (OMIM: 602422) histone RNA hairpin-bindin  (235 aa)
 initn: 1232 init1: 1205 opt: 1224  Z-score: 1142.2  bits: 218.9 E(85289): 7e-57
Smith-Waterman score: 1564; 87.0% identity (87.0% similar) in 270 aa overlap (1-270:1-235)

               10        20        30        40        50        60
pF1KE5 MACRPRSPPRHQSRCDGDASPPSPARWSLGRKRRADGRRWRPEDAEEAEHRGAERRPESF
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::  
NP_001 MACRPRSPPRHQSRCDGDASPPSPARWSLGRKRRADGRRWRPEDAEEAEHRGAERRPE--
               10        20        30        40        50          

               70        80        90       100       110       120
pF1KE5 TTPEGPKPRSRCSDWASAVEEDEMRTRVNKEMARYKRKLLINDFGRERKSSSGSSDSKES
                                        :::::::::::::::::::::::::::
NP_001 ---------------------------------RYKRKLLINDFGRERKSSSGSSDSKES
                                        60        70        80     

              130       140       150       160       170       180
pF1KE5 MSTVPADFETDESVLMRRQKQINYGKNTIAYDRYIKEVPRHLRQPGIHPKTPNKFKKYSR
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 MSTVPADFETDESVLMRRQKQINYGKNTIAYDRYIKEVPRHLRQPGIHPKTPNKFKKYSR
          90       100       110       120       130       140     

              190       200       210       220       230       240
pF1KE5 RSWDQQIKLWKVALHFWDPPAEEGCDLQEIHPVDLESAESSSEPQTSSQDDFDVYSGTPT
       ::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
NP_001 RSWDQQIKLWKVALHFWDPPAEEGCDLQEIHPVDLESAESSSEPQTSSQDDFDVYSGTPT
         150       160       170       180       190       200     

              250       260       270
pF1KE5 KVRHMDSQVEDEFDLEACLTEPLRDFSAMS
       ::::::::::::::::::::::::::::::
NP_001 KVRHMDSQVEDEFDLEACLTEPLRDFSAMS
         210       220       230     




270 residues in 1 query   sequences
60827320 residues in 85289 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Mon Nov  7 23:41:19 2016 done: Mon Nov  7 23:41:20 2016
 Total Scan time:  6.300 Total Display time: -0.030

Function used was FASTA [36.3.4 Apr, 2011]