                         SEQUENCE LISTING

<110>  THE UNIVERSITY OF CHICAGO
 
<120>  RED FLUORESCENT PROTEINS WITH ENHANCED BACTERIAL EXPRESSION, 
       INCREASED BRIGHTNESS AND REDUCED AGGREGATION

<130>  092234-9122-WO00

<140>  New International Application
<141>  2008-11-03

<150>  US 60/984,642
<151>  2007-11-01

<160>  16    

<170>  PatentIn version 3.5

<210>  1
<211>  225
<212>  PRT
<213>  Discosoma

<400>  1

Met Arg Ser Ser Lys Asn Val Ile Lys Glu Phe Met Arg Phe Lys Val 
1               5                   10                  15      


Arg Met Glu Gly Thr Val Asn Gly His Glu Phe Glu Ile Glu Gly Glu 
            20                  25                  30          


Gly Glu Gly Arg Pro Tyr Glu Gly His Asn Thr Val Lys Leu Lys Val 
        35                  40                  45              


Thr Lys Gly Gly Pro Leu Pro Phe Ala Trp Asp Ile Leu Ser Pro Gln 
    50                  55                  60                  


Phe Gln Tyr Gly Ser Lys Val Tyr Val Lys His Pro Ala Asp Ile Pro 
65                  70                  75                  80  


Asp Tyr Lys Lys Leu Ser Phe Pro Glu Gly Phe Lys Trp Glu Arg Val 
                85                  90                  95      


Met Asn Phe Glu Asp Gly Gly Val Val Thr Val Thr Gln Asp Ser Ser 
            100                 105                 110         


Leu Gln Asp Gly Cys Phe Ile Tyr Lys Val Lys Phe Ile Gly Val Asn 
        115                 120                 125             


Phe Pro Ser Asp Gly Pro Val Met Gln Lys Lys Thr Met Gly Trp Glu 
    130                 135                 140                 


Ala Ser Thr Glu Arg Leu Tyr Pro Arg Asp Gly Val Leu Lys Gly Glu 
145                 150                 155                 160 


Ile His Lys Ala Leu Lys Leu Lys Asp Gly Gly His Tyr Leu Val Glu 
                165                 170                 175     


Phe Lys Ser Ile Tyr Met Ala Lys Lys Pro Val Gln Leu Pro Gly Tyr 
            180                 185                 190         


Tyr Tyr Val Asp Ser Lys Leu Asp Ile Thr Ser His Asn Glu Asp Tyr 
        195                 200                 205             


Thr Ile Val Glu Gln Tyr Glu Arg Thr Glu Gly Arg His His Leu Phe 
    210                 215                 220                 


Leu 
225 


<210>  2
<211>  225
<212>  PRT
<213>  Artificial Sequence

<220>
<223>  DsRed.T1

<400>  2

Met Ala Ser Ser Glu Asp Val Ile Lys Glu Phe Met Arg Phe Lys Val 
1               5                   10                  15      


Arg Met Glu Gly Ser Val Asn Gly His Glu Phe Glu Ile Glu Gly Glu 
            20                  25                  30          


Gly Glu Gly Arg Pro Tyr Glu Gly Thr Gln Thr Ala Lys Leu Lys Val 
        35                  40                  45              


Thr Lys Gly Gly Pro Leu Pro Phe Ala Trp Asp Ile Leu Ser Pro Gln 
    50                  55                  60                  


Phe Gln Tyr Gly Ser Lys Val Tyr Val Lys His Pro Ala Asp Ile Pro 
65                  70                  75                  80  


Asp Tyr Lys Lys Leu Ser Phe Pro Glu Gly Phe Lys Trp Glu Arg Val 
                85                  90                  95      


Met Asn Phe Glu Asp Gly Gly Val Val Thr Val Thr Gln Asp Ser Ser 
            100                 105                 110         


Leu Gln Asp Gly Ser Phe Ile Tyr Lys Val Lys Phe Ile Gly Val Asn 
        115                 120                 125             


Phe Pro Ser Asp Gly Pro Val Met Gln Lys Lys Thr Met Gly Trp Glu 
    130                 135                 140                 


Ala Ser Thr Glu Arg Leu Tyr Pro Arg Asp Gly Val Leu Lys Gly Glu 
145                 150                 155                 160 


Ile His Lys Ala Leu Lys Leu Lys Asp Gly Gly His Tyr Leu Val Glu 
                165                 170                 175     


Phe Lys Ser Ile Tyr Met Ala Lys Lys Pro Val Gln Leu Pro Gly Tyr 
            180                 185                 190         


Tyr Tyr Val Asp Ser Lys Leu Asp Ile Thr Ser His Asn Glu Asp Tyr 
        195                 200                 205             


Thr Ile Val Glu Gln Tyr Glu Arg Ala Glu Gly Arg His His Leu Phe 
    210                 215                 220                 


Leu 
225 


<210>  3
<211>  225
<212>  PRT
<213>  Artificial Sequence

<220>
<223>  DsRed.T3

<400>  3

Met Ala Ser Ser Glu Asp Val Ile Lys Glu Phe Met Arg Phe Lys Val 
1               5                   10                  15      


Arg Met Glu Gly Ser Val Asn Gly His Glu Phe Glu Ile Glu Gly Glu 
            20                  25                  30          


Gly Glu Gly Arg Pro Tyr Glu Gly Thr Gln Thr Ala Lys Leu Lys Val 
        35                  40                  45              


Thr Lys Gly Gly Pro Leu Pro Phe Ala Trp Asp Ile Leu Ser Pro Gln 
    50                  55                  60                  


Phe Gln Tyr Gly Ser Lys Val Tyr Val Lys His Pro Ala Asp Ile Pro 
65                  70                  75                  80  


Asp Tyr Lys Lys Leu Ser Phe Pro Glu Gly Phe Lys Trp Glu Arg Val 
                85                  90                  95      


Met Asn Phe Glu Asp Gly Gly Val Val Thr Val Thr Gln Asp Ser Ser 
            100                 105                 110         


Leu Gln Asp Gly Cys Phe Ile Tyr Lys Val Lys Phe Ile Gly Val Asn 
        115                 120                 125             


Phe Pro Ser Asp Gly Pro Val Met Gln Lys Lys Thr Met Gly Trp Glu 
    130                 135                 140                 


Pro Ser Thr Glu Arg Leu Tyr Pro Arg Asp Gly Val Leu Lys Gly Glu 
145                 150                 155                 160 


Ile His Lys Ala Leu Lys Leu Lys Asp Gly Gly His Tyr Leu Val Glu 
                165                 170                 175     


Phe Lys Ser Ile Tyr Met Ala Lys Lys Pro Val Gln Leu Pro Gly Tyr 
            180                 185                 190         


Tyr Tyr Val Asp Ser Lys Leu Asp Ile Thr Ser His Asn Glu Asp Tyr 
        195                 200                 205             


Thr Ile Val Glu Gln Tyr Glu Arg Thr Glu Gly Arg His His Leu Phe 
    210                 215                 220                 


Leu 
225 


<210>  4
<211>  225
<212>  PRT
<213>  Artificial Sequence

<220>
<223>  DsRed-Max

<400>  4

Met Asp Ser Thr Glu Asn Val Ile Lys Pro Phe Met Arg Phe Lys Val 
1               5                   10                  15      


His Met Glu Gly Ser Val Asn Gly His Glu Phe Glu Ile Glu Gly Glu 
            20                  25                  30          


Gly Glu Gly Lys Pro Tyr Glu Gly Thr Gln Thr Ala Lys Leu Gln Val 
        35                  40                  45              


Thr Lys Gly Gly Pro Leu Pro Phe Ala Trp Asp Ile Leu Ser Pro Gln 
    50                  55                  60                  


Phe Met Tyr Gly Ser Lys Val Tyr Thr Lys His Pro Ala Asp Ile Pro 
65                  70                  75                  80  


Asp Tyr Lys Lys Leu Ser Phe Pro Glu Gly Phe Lys Trp Glu Arg Val 
                85                  90                  95      


Met Asn Phe Glu Asp Gly Gly Val Val Thr Val Thr Gln Asp Ser Ser 
            100                 105                 110         


Leu Gln Asp Gly Thr Phe Ile Tyr His Val Lys Phe Ile Gly Val Asn 
        115                 120                 125             


Phe Pro Ser Asp Gly Pro Val Met Gln Lys Lys Thr Leu Gly Trp Glu 
    130                 135                 140                 


Pro Ser Thr Glu Arg Leu Tyr Pro Arg Asp Gly Val Leu Lys Gly Glu 
145                 150                 155                 160 


Ile His Lys Ala Leu Lys Leu Lys Gly Gly Gly His Tyr Leu Cys Glu 
                165                 170                 175     


Phe Lys Ser Ile Tyr Met Ala Lys Lys Pro Val Lys Leu Pro Gly Tyr 
            180                 185                 190         


Tyr Tyr Val Asp Ser Lys Leu Asp Ile Thr Ser His Asn Glu Asp Tyr 
        195                 200                 205             


Thr Val Val Glu Gln Tyr Glu Arg Thr Glu Ala Arg His His Leu Phe 
    210                 215                 220                 


Gln 
225 


<210>  5
<211>  225
<212>  PRT
<213>  Artificial Sequence

<220>
<223>  DsRed-Express2

<400>  5

Met Asp Ser Thr Glu Asn Val Ile Lys Pro Phe Met Arg Phe Lys Val 
1               5                   10                  15      


His Met Glu Gly Ser Val Asn Gly His Glu Phe Glu Ile Glu Gly Glu 
            20                  25                  30          


Gly Glu Gly Lys Pro Tyr Glu Gly Thr Gln Thr Ala Lys Leu Gln Val 
        35                  40                  45              


Thr Lys Gly Gly Pro Leu Pro Phe Ala Trp Asp Ile Leu Ser Pro Gln 
    50                  55                  60                  


Phe Gln Tyr Gly Ser Lys Val Tyr Val Lys His Pro Ala Asp Ile Pro 
65                  70                  75                  80  


Asp Tyr Lys Lys Leu Ser Phe Pro Glu Gly Phe Lys Trp Glu Arg Val 
                85                  90                  95      


Met Asn Phe Glu Asp Gly Gly Val Val Thr Val Thr Gln Asp Ser Ser 
            100                 105                 110         


Leu Gln Asp Gly Thr Phe Ile Tyr His Val Lys Phe Ile Gly Val Asn 
        115                 120                 125             


Phe Pro Ser Asp Gly Pro Val Met Gln Lys Lys Thr Leu Gly Trp Glu 
    130                 135                 140                 


Pro Ser Thr Glu Arg Leu Tyr Pro Arg Asp Gly Val Leu Lys Gly Glu 
145                 150                 155                 160 


Ile His Lys Ala Leu Lys Leu Lys Gly Gly Gly His Tyr Leu Val Glu 
                165                 170                 175     


Phe Lys Ser Ile Tyr Met Ala Lys Lys Pro Val Lys Leu Pro Gly Tyr 
            180                 185                 190         


Tyr Tyr Val Asp Ser Lys Leu Asp Ile Thr Ser His Asn Glu Asp Tyr 
        195                 200                 205             


Thr Val Val Glu Gln Tyr Glu Arg Ala Glu Ala Arg His His Leu Phe 
    210                 215                 220                 


Gln 
225 


<210>  6
<211>  225
<212>  PRT
<213>  Artificial Sequence

<220>
<223>  DsRed.M1

<400>  6

Met Asp Asn Thr Glu Asp Val Ile Lys Glu Phe Met Gln Phe Lys Val 
1               5                   10                  15      


Arg Met Glu Gly Ser Val Asn Gly His Tyr Phe Glu Ile Glu Gly Glu 
            20                  25                  30          


Gly Glu Gly Lys Pro Tyr Glu Gly Thr Gln Thr Ala Lys Leu Gln Val 
        35                  40                  45              


Thr Lys Gly Gly Pro Leu Pro Phe Ala Trp Asp Ile Leu Ser Pro Gln 
    50                  55                  60                  


Phe Gln Tyr Gly Ser Lys Ala Tyr Val Lys His Pro Ala Asp Ile Pro 
65                  70                  75                  80  


Asp Tyr Met Lys Leu Ser Phe Pro Glu Gly Phe Thr Trp Glu Arg Ser 
                85                  90                  95      


Met Asn Phe Glu Asp Gly Gly Val Val Glu Val Gln Gln Asp Ser Ser 
            100                 105                 110         


Leu Gln Asp Gly Thr Phe Ile Tyr Lys Val Lys Phe Lys Gly Val Asn 
        115                 120                 125             


Phe Pro Ala Asp Gly Pro Val Met Gln Lys Lys Thr Ala Gly Trp Glu 
    130                 135                 140                 


Pro Ser Thr Glu Lys Leu Tyr Pro Gln Asp Gly Val Leu Lys Gly Glu 
145                 150                 155                 160 


Ile Ser His Ala Leu Lys Leu Lys Asp Gly Gly His Tyr Thr Cys Asp 
                165                 170                 175     


Phe Lys Thr Val Tyr Lys Ala Lys Lys Pro Val Gln Leu Pro Gly Asn 
            180                 185                 190         


His Tyr Val Asp Ser Lys Leu Asp Ile Thr Asn His Asn Glu Asp Tyr 
        195                 200                 205             


Thr Val Val Glu Gln Tyr Glu His Ala Glu Ala Arg His Ser Gly Ser 
    210                 215                 220                 


Gln 
225 


<210>  7
<211>  225
<212>  PRT
<213>  Artificial Sequence

<220>
<223>  mRed-555

<400>  7

Met Asp Asn Thr Glu Asn Val Ile Lys Glu Phe Met Gln Phe Lys Val 
1               5                   10                  15      


Tyr Met Glu Gly Ser Val Asn Gly His Tyr Phe Glu Ile Glu Gly Glu 
            20                  25                  30          


Gly Glu Gly Lys Pro Tyr Glu Gly Thr Gln Thr Ala Lys Leu Gln Val 
        35                  40                  45              


Thr Lys Gly Gly Pro Leu Pro Phe Ala Trp Asp Ile Leu Ser Pro Gln 
    50                  55                  60                  


Phe Met Tyr Gly Ser Lys Ala Tyr Val Lys His Pro Ala Asp Ile Pro 
65                  70                  75                  80  


Asp Tyr Leu Lys Leu Ser Phe Pro Glu Gly Phe Thr Trp Glu Arg Ser 
                85                  90                  95      


Met Asn Phe Glu Asp Gly Gly Val Val Glu Val Gln Gln Asp Ser Ser 
            100                 105                 110         


Leu Gln Gly Asp Thr Phe Ile Tyr His Val Lys Phe Lys Gly Val Asn 
        115                 120                 125             


Phe Pro Ala Asp Gly Pro Val Met Gln Lys Lys Thr Leu Gly Trp Glu 
    130                 135                 140                 


Pro Ser Thr Glu Lys Leu Tyr Pro Gln Asp Gly Val Leu Lys Gly Glu 
145                 150                 155                 160 


Ile Ser His Ala Leu Lys Leu Glu Gly Gly Gly His Tyr Asn Cys Asp 
                165                 170                 175     


Phe Lys Thr Val Tyr Lys Ala Lys Lys Pro Val Gln Leu Pro Gly Asn 
            180                 185                 190         


His Tyr Val Asp Ser Lys Leu Asp Ile Thr Ser His Asn Glu Asp Tyr 
        195                 200                 205             


Thr Val Val Glu Gln Tyr Glu His Ser Glu Ala Arg His Ser Gly Ser 
    210                 215                 220                 


Gln 
225 


<210>  8
<211>  225
<212>  PRT
<213>  Artificial Sequence

<220>
<223>  mRed-580

<400>  8

Met Asp Asn Thr Glu Asn Val Ile Lys Glu Phe Met Gln Phe Lys Val 
1               5                   10                  15      


Tyr Met Glu Gly Ser Val Asn Gly His Tyr Phe Glu Ile Glu Gly Glu 
            20                  25                  30          


Gly Glu Gly Lys Pro Tyr Glu Gly Thr Gln Thr Ala Lys Leu Gln Val 
        35                  40                  45              


Thr Lys Gly Gly Pro Leu Pro Phe Ala Trp Asp Ile Leu Ser Pro Gln 
    50                  55                  60                  


Phe Met Tyr Gly Ser Lys Ala Tyr Val Lys His Pro Ala Asp Ile Pro 
65                  70                  75                  80  


Asp Tyr Leu Lys Leu Ser Phe Pro Glu Gly Phe Thr Trp Glu Arg Ser 
                85                  90                  95      


Met Asn Phe Glu Asp Gly Gly Val Val Glu Val Gln Gln Asp Ser Ser 
            100                 105                 110         


Leu Gln Gly Asp Thr Phe Ile Tyr His Val Lys Val Lys Gly Val Asn 
        115                 120                 125             


Phe Pro Ala Asp Gly Pro Val Met Gln Lys Lys Thr Leu Gly Trp Glu 
    130                 135                 140                 


Pro Ser Thr Glu Lys Met Tyr Pro Gln Asp Gly Val Leu Lys Gly Glu 
145                 150                 155                 160 


Ile Ser Met Ala Leu Lys Leu Glu Gly Gly Gly His Tyr Asn Cys Asp 
                165                 170                 175     


Val Lys Thr Val Tyr Lys Ala Lys Lys Pro Val Gln Leu Pro Gly Asn 
            180                 185                 190         


His Tyr Val Asp Ile Lys Leu Asp Ile Thr Ser His Asn Glu Asp Tyr 
        195                 200                 205             


Thr Val Val Glu Leu Tyr Glu His Ala Glu Ala Arg His Ser Gly Ser 
    210                 215                 220                 


Gln 
225 


<210>  9
<211>  225
<212>  PRT
<213>  Artificial Sequence

<220>
<223>  mRed-595

<400>  9

Met Asp Asn Thr Glu Asn Val Ile Lys Glu Phe Met Gln Phe Lys Val 
1               5                   10                  15      


Tyr Met Glu Gly Ser Val Asn Gly His Tyr Phe Glu Ile Glu Gly Glu 
            20                  25                  30          


Gly Glu Gly Lys Pro Tyr Glu Gly Thr Gln Thr Val Lys Leu Gln Val 
        35                  40                  45              


Thr Lys Gly Gly Pro Leu Pro Phe Ala Trp Asp Ile Leu Ser Pro Gln 
    50                  55                  60                  


Phe Met Tyr Gly Ser Lys Ala Tyr Val Lys His Pro Ala Asp Ile Pro 
65                  70                  75                  80  


Asp Tyr Phe Lys Leu Ser Phe Pro Glu Gly Phe Thr Trp Glu Arg Ser 
                85                  90                  95      


Met Asn Phe Glu Asp Gly Gly Val Val Glu Val Gln Gln Asp Ser Ser 
            100                 105                 110         


Leu Gln Gly Asp Thr Phe Ile Tyr His Val Lys Phe Lys Gly Val Asn 
        115                 120                 125             


Phe Pro Ala Asp Gly Pro Val Met Gln Lys Lys Thr Leu Gly Trp Glu 
    130                 135                 140                 


Pro Ser Thr Glu Lys Met Tyr Pro Gln Asp Gly Val Leu Lys Gly Glu 
145                 150                 155                 160 


Ile Ser Met Ala Leu Lys Leu Glu Gly Gly Gly His Tyr Asn Cys Asp 
                165                 170                 175     


Val Lys Thr Val Tyr Lys Ala Lys Lys Pro Val Gln Leu Pro Gly Asn 
            180                 185                 190         


His Tyr Val Asp Ile Lys Leu Asp Ile Thr Ser His Asn Glu Asp Tyr 
        195                 200                 205             


Thr Val Val Glu Gln Tyr Glu His Ser Glu Ala Arg His Ser Gly Ser 
    210                 215                 220                 


Gln 
225 


<210>  10
<211>  225
<212>  PRT
<213>  Artificial Sequence

<220>
<223>  mRedB-595

<400>  10

Met Asp Ser Thr Glu Asn Val Ile Lys Pro Phe Met Arg Phe Lys Val 
1               5                   10                  15      


His Met Glu Gly Ser Val Asn Gly His Tyr Phe Glu Val Glu Gly Glu 
            20                  25                  30          


Gly Glu Gly Lys Pro Tyr Glu Gly Thr Gln Thr Val Lys Leu Gln Val 
        35                  40                  45              


Thr Lys Gly Gly Pro Leu Pro Phe Ala Tyr Asp Ile Leu Ser Pro Gln 
    50                  55                  60                  


Phe Met Tyr Gly Ser Lys Ala Tyr Val Lys His Pro Ala Asp Ile Pro 
65                  70                  75                  80  


Asp Tyr Phe Lys Leu Ser Phe Pro Glu Gly Phe Thr Trp Glu Arg Ser 
                85                  90                  95      


Met Asn Phe Glu Asp Gly Gly Val Val Glu Val Gln Gln Asp Ser Ser 
            100                 105                 110         


Leu Gln Asp Gly Thr Phe Ile Tyr His Val Lys Phe Lys Gly Val Asp 
        115                 120                 125             


Phe Pro Ala Asp Gly Pro Val Met Gln Lys Lys Thr Leu Gly Trp Glu 
    130                 135                 140                 


Pro Ser Thr Glu Lys Met Tyr Pro Gln Asp Gly Val Leu Lys Gly Glu 
145                 150                 155                 160 


Ile Ser Met Ala Leu Lys Leu Lys Gly Gly Gly His Tyr Asn Cys Asp 
                165                 170                 175     


Val Lys Thr Val Tyr Lys Ala Lys Lys Pro Val Lys Leu Pro Gly Asn 
            180                 185                 190         


His Tyr Val Asp Ile Lys Leu Asp Ile Thr Ser His Asn Glu Asp Tyr 
        195                 200                 205             


Thr Val Val Glu Gln Tyr Glu His Ser Glu Ala Arg His Ser Gly Ser 
    210                 215                 220                 


Gln 
225 


<210>  11
<211>  678
<212>  DNA
<213>  Discosoma

<400>  11
atgaggtctt ccaagaatgt tatcaaggag ttcatgaggt ttaaggttcg catggaagga       60

acggtcaatg ggcacgagtt tgaaatagaa ggcgaaggag aggggaggcc atacgaaggc      120

cacaataccg taaagcttaa ggtaaccaag gggggacctt tgccatttgc ttgggatatt      180

ttgtcaccac aatttcagta tggaagcaag gtatatgtca agcaccctgc cgacatacca      240

gactataaaa agctgtcatt tcctgaagga tttaaatggg aaagggtcat gaactttgaa      300

gacggtggcg tcgttactgt aacccaggat tccagtttgc aggatggctg tttcatctac      360

aaggtcaagt tcattggcgt gaactttcct tccgatggac ctgttatgca aaagaagaca      420

atgggctggg aagccagcac tgagcgtttg tatcctcgtg atggcgtgtt gaaaggagag      480

attcataagg ctctgaagct gaaagacggt ggtcattacc tagttgaatt caaaagtatt      540

tacatggcaa agaagcctgt gcagctacca gggtactact atgttgactc caaactggat      600

ataacaagcc acaacgaaga ctatacaatc gttgagcagt atgaaagaac cgagggacgc      660

caccatctgt tcctttaa                                                    678


<210>  12
<211>  21
<212>  DNA
<213>  Synthetic oligonucleotide


<220>
<221>  misc_feature
<222>  (10)..(10)
<223>  n is a, c, g, or t

<220>
<221>  misc_feature
<222>  (13)..(13)
<223>  n is a, c, g, or t

<400>  12
catggaytcn acngaraacg t                                                 21


<210>  13
<211>  13
<212>  DNA
<213>  Synthetic oligonucleotide


<220>
<221>  misc_feature
<222>  (5)..(5)
<223>  n is a, c, g, or t

<220>
<221>  misc_feature
<222>  (8)..(8)
<223>  n is a, c, g, or t

<400>  13
tytcngtnga rtc                                                          13


<210>  14
<211>  21
<212>  DNA
<213>  Synthetic oligonucleotide


<220>
<221>  misc_feature
<222>  (13)..(13)
<223>  n is a, c, g, or t

<400>  14
catggayagy acngaraacg t                                                 21


<210>  15
<211>  13
<212>  DNA
<213>  Synthetic oligonucleotide


<220>
<221>  misc_feature
<222>  (5)..(5)
<223>  n is a, c, g, or t

<220>
<221>  misc_feature
<222>  (8)..(8)
<223>  n is a, c, g, or t

<400>  15
tytcngtnga rtc                                                          13


<210>  16
<211>  12
<212>  DNA
<213>  Synthetic oligonucleotide

<400>  16
gatagcactg ag                                                           12


