#NEXUS
[!This data set was downloaded from TreeBASE, a relational database of phylogenetic knowledge. TreeBASE has been supported by the NSF, Harvard University, Yale University, SDSC and UC Davis. Please do not remove this acknowledgment from the Nexus file.


Generated on September 19, 2025; 13:33 GMT

TreeBASE (cc) 1994-2008

Study reference:
Susko E., Field C., Blouin C., & Roger A. 2003. Estimation of Rates-Across-Sites
Distributions in Phylogenetic Substitution Models. Systematic Biology, 52(5): 594-603.

TreeBASE Study URI:  http://purl.org/phylo/treebase/phylows/study/TB2:S1019]

[ The following blocks are input data for analysis step 1772 ]
BEGIN TAXA;
        TITLE  TaxaForAnalysisStep1772;
        DIMENSIONS NTAX=13;
        TAXLABELS
            Arabidopsis_thaliana
            Caenorhabditis_elegans
            Candida_albicans
            Dictyostelium_discoideum
            Drosophila_melanogaster
            Giardia_lamblia
            Homo_sapiens
            Leishmania_major
            Mus_musculus
            Oryza_sativa
            Saccharomyces_cerevisiae
            Schizosaccharomyces_pombe
            Trypanosoma_brucei
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M603]

	TITLE Eukaryotic_HBS1;
	LINK TAXA = TaxaForAnalysisStep1772;
	DIMENSIONS NCHAR=269;
	FORMAT DATATYPE=Protein SYMBOLS= "A C D E F G H I K L M N P Q R S T V W Y" MISSING=? GAP= -;

MATRIX
[                                     10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260         ]
[                                      .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         ]
Arabidopsis_thaliana          STLSGRLLHLLGRISQKQMHKYKEAKLQGKSFAYAWALDESAEERERGITMTVAVAYFNSKRHHVVLLDSPGHKDFVPNMIAGATQADAAILVIDATREHARVLRGFGVEQVIVAINKMDGYSKERFDLIWIPLSAMENQNLSWYPCLLDAVDPDRDVSKPLLMPICDAGKLEAGAVRGSKVMVMPSGDQGTIRSLRDARAGDNVALAILLGSQLEFHVHHAKEAATVVKLVAMLDRCLTAKQSAMLEVSPVCVETFSESRALGRVFLR
Caenorhabditis_elegans        STLMGHLLHDLEVVDSRTIDKFHEAARNGKSFAYAWVLDETEEERERGVTMDIGRTSFETSHRRIVLLDAPGHKDFISNMITGTSQADAAILVVNATKEHALLLRSLGVTQLIVAVNKLDDWSQDRFDEIFVPVSGFTGENLDWYPCLLELIDPQPPSDGPLRIGISDVGKIESGEVEDDKVYIMSSVTAATVKECANCFAGDYILLTIIKGAKAELYAHSLCVPCTFTNLLYTINRFIAKGASAVVEIEDIAIETFTSCRALGRVTFR
Candida_albicans              STLMGRLLYDFGIIDAKTVNKLKEAEKAGKSFALAWVMDQTEEERSHGVTVDICATDFETDTTKFTAIDAPGHKDFVPQMISGVSQADFALLVVDSTKEHTILAKNFGLEKICVAVNKMDNWDEHRFDAIFIPISGLTGNNVKWYPTLAEYIERDSLASEPFFLSVHDVGKVSSGVISGETIVALPSGESLQVQSLVSAISGELAQIALLVGTPFVLFRNNTQVPARVSKIVEVVNLHLVSRQTAIVEIAALPVTKFDDNKVLGRIVIR
Dictyostelium_discoideum      STTIFHILFKLGYVDKRTMSKFNESNRMGKSFHFAWVLDEQEEERERGVTMDVCVRYFETEHRRITLLDAPGHRDFIPNMISGTTQADVAILLINATKEHALLAKSLGIMELIVAVNKMDEWDQSRYDYIFIPISGFTGENLKWYPTLIECIDGERLLNKPFRMNISDVGKIEAGLLGGDKILISPGNDICTIKSIRNAVGGDNVDLSMTNGYQVVFHAHSMEEPATITRLISLLDRCISDTCTALVEITLSCLELYSSYRQLGRFTLR
Drosophila_melanogaster       STLMGHLLYDTGNVSQRVMHKHQESKKLGKSFMYAWVLDETGEERARGITMDVGQSRIETKTKIVTLLDAPGHKDFIPNMISGATQADVALLVVDATREHAILVRSLGVNQLGVVINKLDGWSQDRFTEIFTPCSGLTGENLNWYRHLLDVIEPERAIDRPLRMSVSDIGRVETGVLCNDKVLVGASREQAQVKSLMNVFAGDQVSVTITMGFPVLLHHQSLIEPAVVCKLTASIHRCLGNNSCALVELEPICIERYADFKELGRVMLR
Giardia_lamblia               STIFGHLAVLSGSVSMRERTRTALADTYNKTFSYAFLLDTNDEERQRGVTMDVELGDNYSVPHTVFLQDCPGHRDFVPSLIRAVSQPDAAVLVLDATREHLQLLMIFGVKHIMVAVNKLDDWNEGRFVEIFIPVSGIDGSHNDWVHTSLGEEIQIKGEKTSPTIILFDVCVVESGILQSDSIVHLPSMYLFQIVSIVDAVAYDTVTLYISVGDVYDCYVGSSRVEARVHKINAQINPLVGKSAYVRMTLIAVIVKEFSKSKLMGRMILR
Homo_sapiens                  STLMGHMLYLLGNINKRTMHKYQESKKAGKSFAYAWVLDETGEERERGVTMDVGMTKFETTTKVITLMDAPGHKDFIPNMITGAAQADVAVLVVDATREHGLLVRSLGVTQLAVAVNKMDNWQQERFQEIFIPTSGLSGENLKWYLCLLEQIDPQRSIDKPFRLCVSDVGKIEAGYIQGDRLLAMPPNETCTVKGILHAAAGDHVSLTITKGFPVLLHYQTVSEPAVIKRLISVLNKFLTKGQNALVELQPIALELYKDFKELGRFMLR
Leishmania_major              STTLGHLLLLLGRVSIQDVERNKADRTHHKSFKYAWLLDQCEEERRRGVTIDSGSFCFETEHRRVHILDAPGHKDFVLNMISSATQADAALLVVTATKSHLLVLKTLGVGSIVVAVNKMDAYSQERYDYVFCPISGMTGVNIPWYLSLIEMIDESRLVNSPLRLSLQDVAKVESGRLFGDMVHFVPSEVRVTIKSIKPAFAGETVEISILPGASFTIIVHALTVRVHVAALISKMDKCVPPAAQAMMLFRPVALEPATECRALGRFVLQ
Mus_musculus                  STLMGHMLYLLGNVNKRTMHKYQESKKAGKSFAYAWVLDETGEERERGVTMDVGMTKFETTTKVITLMDAPGHKDFIPNMITGAAQADVAVLVVDATREHGLLVRSLGVTQLAVAVNKMDNWQQERFQEIFIPTSGLSGENLTWYMCLLEQIDPQRSIDKPFRLCVSDVGKIEAGYIQGDRLLAMPPNETCTAKGILHAAAGDHVNLTITKGFPVLLHYQTVSEPAVIKRLISVLNKLLTKGQNALVELQPVALELYKDFKELGRFMLR
Oryza_sativa                  STLSGRLLHLLGRISKKDMHKNKEAKEKGKSFAYAWAMDESSEERERGVTMTVAVAYLETNKYRVVLLDSPGHKDFVPNMISGATQADAAILVVDATKEHAQLIRSFGVEQLIVAVNKMDGYSKERFEFIWIPLSAVENQNLSWYFCLLDAIDPSRDVSKPLILPICDVGKLETGAIRGSKVLISPCGEVATVKSIRDARAGDNVAVSILIGYQVEFHIHHVKEAARVTKIVALLDRFLKSKQNAVVQVTPVCVEEFSKCRALGRAFLR
Saccharomyces_cerevisiae      STLMGRLLYDLNIVNQSQLRKLRESETMGKSFKFAWIMDQTNEERERGVTVSICTSHFSTHRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCTKEHMLLASSLGIHNLIIAMNKMDDWSQQRFEEIWVPISGFSGEGVQWYPNLMSTLEEGINKDDPFLFSVLEIGKLESGSIQGESLTIYPSEQSCIVDKIVGAIKGDFVTLKLLPGTPFILFIGVKEQPARIKRLISFIDRHLGSKQRAFVEIEWIPLLTAHENDRLGRVVLR
Schizosaccharomyces_pombe     STMLGRIMFELGEINSRSMQKLNEAANSGKSFSYAWLLDTTEEERARGVTMDVASTTFESDKKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSTREHAYLLRALGISEIVVSVNKLDSWSEDRFQEIFVPISAISGTNLKWYPTLLSALDPEKPYRKPLRLSIDDVGRVEAGNVQNQVLYDVSSQEDAYVKNVRNAVAGDTVTLQILSGSTLVLHLGRTVT-SVSLKIVTVNNRHIASRKRALVRISLFPLCLAEECPALGRFILR
Trypanosoma_brucei            STTIGHLLLMLGKVTQSEVDRNKNARQMKKSFKFAWLLDQSEEERRRGVTIDAGSYCFETEHRRIHVLDAPGHKDYVLNMMSSAAQADAALLVVTATKEHLVILKMLGVGHIVVAVNKMDGYSQERYDFVFCPVSGIQGTNIPWYPSLVVRLDESRMMGTLLRLSVQDVCKVECGNVQGEKLLFVPADVKVQVRSIKPAFAGDTIVIDILPGARFTMVCHALTVQLQVLVLVSKMDKCIPKSTQAIIVFRKVALEPAEVCRSLGRFVLQ
;
END;

[ The following blocks are output data for analysis step 1772 ]
BEGIN TREES;
      TITLE Tb6548;
      LINK TAXA = TaxaForAnalysisStep1772;
      TREE HBS1 = [&R] (Mus_musculus,Homo_sapiens,(Drosophila_melanogaster,(Caenorhabditis_elegans,(Dictyostelium_discoideum,((Schizosaccharomyces_pombe,(Saccharomyces_cerevisiae,Candida_albicans)),((Giardia_lamblia,(Trypanosoma_brucei,Leishmania_major)),(Arabidopsis_thaliana,Oryza_sativa)))))));
[!  TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr4187]


END;