NEXUS
[File created by TreeBASE:  7/26/07  21:08:53]
[Matrix accession#: M2363]

BEGIN TAXA;
	TITLE M2363;
	DIMENSIONS  NTAX=38;
	TAXLABELS
		Aeropyrum_pernix_Pgb	Methanosarcina_acetivorans_Pgb	Chloroflexus_aurantiacus_Pgb	Thermobifida_fusca_Pgb	Thermosynechococcus_elongatus_Gib	Bacillus_subtilis_HemAT	Bacillus_cereus_HemAT	Halobacterium_salinarum_HemAT	Mus_musculus_HbBm	Mus_musculus_HbA	Homo_sapiens_HbA	Homo_sapiens_HbT	Homo_sapiens_HbD	Homo_sapiens_HbB	Homo_sapiens_HbE	Homo_sapiens_HbG	Mus_musculus_HbE	Homo_sapiens_Cyg	Mus_musculus_Cyg	Homo_sapiens_Ngb	Mus_musculus_Ngb	Cerebratulus_lacteus_NHb	Paramecium_caudatum_Hb	Glycera_dibranchiata_Hb	Paramphistomum_epiclitum_Hb	Homo_sapiens_Mb	Lupinus_luteus_LHb	Oryza_sativa_LHb	Lucina_pectinata_Hb	Synechocystis_sp._PCC6803_cyanoHb	Mycobacterium_tuberculosis_HbN	Vitreoscilla_stercoraria_Hb	Escherichia_coli_Hmp	Cupriavidus_necator_FHb	Physeter_catodon_Mb	Equus_caballus_Mb	Riftia_pachyptila_Hb	Ascaris_suum_Hb
	;
END;

BEGIN CHARACTERS;
	TITLE M2363;
	DIMENSIONS NCHAR=251;
	FORMAT DATATYPE = PROTEIN SYMBOLS = " 1 2 3 4 " MISSING = ? GAP = -  ;
	MATRIX
		Aeropyrum_pernix_Pgb                    -------------------------------MTPSDIPGYDYGRVEK--SPITDLEFDLLKKTVMLGEKDVMYLKKACDVLKDQVDEILDLWYGWVASN-EHLIIYYFSNPDT------GEPIKEYLERVRARFGAWILDTTCRDYN--REWLDYQYEVGLRHHRSK-----KGVTDGVRTVPHIPLRYLIAFIYPITA-TIKPFLAKKGGSPEDIEGMYNAWFKSVVLQVAIWSHPYTKENDW-------
		Methanosarcina_acetivorans_Pgb          -------------------------------VSVEKIPGYTYGETEN-RAPFNLEDLKLLKEAVMFTAEDEEYIQKAGEVLEDQVEEILDTWYGFVGSH-PHILLYYFTSPD-------GTPNEKYLAAVRKRFSRWILDTCNRSYD---QAWLDYQYEIGLRHHRTK----KNQTDNVESVPNIGYRYLVAFIYPITA-TMKPFLARKGHTPEEVEKMYQAWFKATTLQVALWSYPYVKYGDF-------
		Chloroflexus_aurantiacus_Pgb            MLEIRITYFTYYHSALRLSLQPEKGYSSRRWVMSEAIPGYTYGTAQVAQSPVSLEEWELLKQTVLWTAEDEQYLRMAGEVLGDQVDAILDLWYGFVASH-AHLVYYFTGSD--------GQPIADYLSRVRQRFGQWILDTCRRPYD---QDWLNYQMEIALRHYRTK----KNQTDGVQSVPMIPLRYMIAFIYPITA-TIREFLARKGHSAAEVDRMHQAWFKSIVLQVTLWSYPYTREGDF-------
		Thermobifida_fusca_Pgb                  -----------------MQLAQSSTARRVGMATKTLIPGYTYGTEQVAKSPIGLEDLNKLKTTVMFTSADEEALRMAGDVLEDQVEDVLDVWYGFVADH-PHLLAYFSTPD--------GHPIQEYLDRVRERFGQWILDTCRRPYN--QEWLDYQQEIALRHTPEK-----KNVTDNANSVDNIPLRYVIAFIYPVTA-TLRPFLAKKGHSADQVEANYQAWFKSVTMQIALWSQPYTRDGYW-------
		Thermosynechococcus_elongatus_Gib       ----------------------------------MVIQSFEVKKMTIEPINFMATMVRRVQLTDEDKSLLAEFLPWGKEI----APQMADTFYDYLGRD--EEMNAILNAT----------EGRIHRLHQTFVDWFYEMFTGMDSWG--KAYAERRWKIGLVHVRIG-----IGPQHVVPAMAVVVNAVRQKLREANKSEALSDALGKICMIDLAFIEQAYFEVSSQAVLKETGWTQALFQRLIATGAAAM
		Bacillus_subtilis_HemAT                 ---------------------ML--FKKDRKQETAYFSDSNGQQKNRIQLTNKHADVKKQLKMVRLGDAELYVLEQLQPLIQENIVNIVDAFYKNLDEE-SSLMDIINDHS--------------SVDRLKQTLKRHIQEMFAGVIDD--EFIEKRNRIASIHLRIG-----LLPKWYMGAFQELLLSMIDIYEASITNIQELLKAIKATTKILNLEQQLVLEAFQSEYNQTRDEQEEKKNLLHQ------
		Bacillus_cereus_HemAT                   ---------------------MLGVFKKHNNTTNVSILELSKNQQITFNVP-TNSELKIQMDMLHISKEDLQIVKVLQPFIYEEIDWITEKFYSNITKQ-PNLITIIERYS--------------SIPKLKQTLKTHIKELFSGDMH--ENFIEQRVRIAKRHVQIG-----LHRKWYTFLYQELFRSIMKILKTKITTQDDFSYSINVINKLLTLEQELVIASYESEYERMQKELEKEKEITA-------
		Halobacterium_salinarum_HemAT           ---------------------MS---NDNDTLVTADVRNGIDGHALADRIGLDEAEIAWRLSFTGIDDDTMAALAAEQPLFEATADALVTDFYDHLESY-ERTQDLFANST-------------KTVEQLKETQAEYLLGLGRGEYD---TEYAAQRARIGKIHDVLG----LGPDVYLGAYTRYYTGLLDALADDVVADRGEEAAAAVDELVARFLPMLKLLTFDQQIAIDTYIDSYAQRLHDE------
		Mus_musculus_HbBm                       ------------------------------------------------------------MVHLTDAEKAAVSCLWGKVNSD----EVGGEALGRLLVVYPWTQRYFD-SFGDLSSASAIMGNAKVKAHGKKVITAFNDGLNBLDS------LKGTFASLSELHCDKL---HVDPENFRLLGNMIVIVLGHHLGKD----FTPAAQAAFQKVVAGVATALAHKYH--------------------------
		Mus_musculus_HbA                        -------------------------------------------------------------MVLSGEDKSNIKAAWGKIGGH--GAEYGAEALERMFASFPTTKTYFP-HF-DVSH-----GSAQVKGHGKKVADALASAAGHLDD------LPGALSALSDLHAHKL---RVDPVNFKLLSHCLLVTLASHHPAD----FTPAVHASLDKFLASVSTVLTSKYR--------------------------
		Homo_sapiens_HbA                        -------------------------------------------------------------MVLSPADKTNVKAAWGKVGAH--AGEYGAEALERMFLSFPTTKTYFP-HF-DLSH-----GSAQVKGHGKKVADALTNAVAHVDD------MPNALSALSDLHAHKL---RVDPVNFKLLSHCLLVTLAAHLPAE----FTPAVHASLDKFLASVSTVLTSKYR--------------------------
		Homo_sapiens_HbT                        -------------------------------------------------------------MALSAEDRALVRALWKKLGSN--VGVYTTEALERTFLAFPATKTYFS-HL-DLSP-----GSSQVRAHGQKVADALSLAVERLDD------LPHALSALSHLHACQL---RVDPASFQLLGHCLLVTLARHYPGD----FSPALQASLDKFLSHVISALVSEYR--------------------------
		Homo_sapiens_HbD                        -------------------------------------------------------------VHLTPEEKTAVNALWGKVN----VDAVGGEALGRLLVVYPWTQRFFE-SFGDLSSPDAVMGNPKVKAHGKKVLGAFSDGLAHLDN------LKGTFSQLSELHCDKL---HVDPENFRLLGNVLVCVLARNFGKE----FTPQMQAAYQKVVAGVANALAHKYH--------------------------
		Homo_sapiens_HbB                        ------------------------------------------------------------MVHLTPEEKSAVTALWGKVN----VDEVGGEALGRLLVVYPWTQRFFE-SFGDLSTPDAVMGNPKVKAHGKKVLGAFSDGLAHLDN------LKGTFATLSELHCDKL---HVDPENFRLLGNVLVCVLAHHFGKE----FTPPVQAAYQKVVAGVANALAHKYH--------------------------
		Homo_sapiens_HbE                        ------------------------------------------------------------MVHFTAEEKAAVTSLWSKMN----VEEAGGEALGRLLVVYPWTQRFFD-SFGNLSSPSAILGNPKVKAHGKKVLTSFGDAIKNNDN------LKPAFAKLSELHCDKL---HVDPENFKLLGNVMVIILATHFGKE----FTPEVQAAWQKLVSAVAIALAHKYH--------------------------
		Homo_sapiens_HbG                        ------------------------------------------------------------MGHFTEEDKATITSLWGKVN----VEDAGGETLGRLLVVYPWTQRFFD-SFGNLSSASAIMGNPKVKAHGKKVLTSLGDAIKHLDD------LKGTFAQLSELHCDKL---HVDPENFKLLGNVLVTVLAIHFGKE----FTPEVQASWQKMVTAVASALSSRYH--------------------------
		Mus_musculus_HbE                        ------------------------------------------------------------MVNFTAEEKTLINGLWSKVN----VEEVGGEALGRLLVVYPWTQRFFD-SFGNLSSASAIMGNPRVKAHGKKVLTAFGESIKNLDN------LKSALAKLSELHCDKL---HVDPENFKLLGNVLVIVLASHFGNE----FTAEMQAAWQKLVAGVATALSHKYH--------------------------
		Homo_sapiens_Cyg                        ---------------------------------------------MEKVPGEMEIERRERSEELSEAERKAVQAMWARLYAN--CEDVGVAILVRFFVNFPSAKQYFS-QFKHMEDPLEMERSPQLRKHACRVMGALNTVVENLHDPD---KVSSVLALVGKAHALKH---KVEPVYFKILSGVILEVVAEEFASD----FPPETQRAWAKLRGLIYSHVTAAYKEVGWVQQVPNATTPPATLPSSGP---
		Mus_musculus_Cyg                        ---------------------------------------------MEKVPGDMEIERRERSEELSEAERKAVQATWARLYAN--CEDVGVAILVRFFVNFPSAKQYFS-QFRHMEDPLEMERSPQLRKHACRVMGALNTVVENLHDPD---KVSSVLALVGKAHALKH---KVEPMYFKILSGVILEVIAEEFAND----FPVETQKAWAKLRGLIYSHVTAAYKEVGWVQQVPNTTTPPATLPSSGP---
		Homo_sapiens_Ngb                        ---------------------------------------------------------------MERPEPELIRQSWRAVSRS--PLEHGTVLFARLFALEPDLLPLFQYNCRQFSSPEDCLSSPEFLDHIRKVMLVIDAAVTNVEDLS---SLEEYLASLGRKHRAVG----VKLSSFSTVGESLLYMLEKCLGPA----FTPATRAAWSQLYGAVVQAMSRGWDGE------------------------
		Mus_musculus_Ngb                        ---------------------------------------------------------------MERPESELIRQSWRVVSRS--PLEHGTVLFARLFALEPSLLPLFQYNGRQFSSPEDCLSSPEFLDHIRKVMLVIDAAVTNVEDLS---SLEEYLTSLGRKHRAVG----VRLSSFSTVGESLLYMLEKCLGPD----FTPATRTAWSRLYGAVVQAMSRGWDGE------------------------
		Cerebratulus_lacteus_NHb                -------------------------------------------------------------------------------MV--NWAAVVDDFYQELFKAHPEYQNKF--GFK-GVALGSLKGNAAYKTQAGKTVDYINAAIGGSAD----------AAGLASRHKGRN----VGSAEFHNAKACLAKACSAHGAP-----DLGHAIDDILSHL--------------------------------------
		Paramecium_caudatum_Hb                  -------------------------------------------------------------------------SLFEQLGGQAAVQAVTAQFYANIQADAT-VATFFNGID--------------MPNQTNKTAAFLCAALGGPNA------WTG--RNLKEVHANMG----VSNAQFTTVIGHLRSALTGAG--------VAAALVEQTVAVAETVRGDVVTV---------------------------
		Glycera_dibranchiata_Hb                 --------------------------------------------------------------GLSAAQRQVVASTWKDIAGSDNGAGVGKECFTKFLSAHHDMAAVFG-FSGASD---PGVADLGAKVLAQIGVAVSHLGDEGK--------MVAEMKAVGVRHKGYGNK-HIKAEYFEPLGASLLSANEHRIGGK----MMAAAKDAWAAAYADISGALISGLQS-------------------------
		Paramphistomum_epiclitum_Hb             -------------------------------------------------------------TLTKHEQDILLKELGPHVDTPAHIVETGLGAYHALFTAHPQYISHFSRLEGHTIENVMQSEGIKHYARTL-TEAIVHMLKEISN----DAEVKKIAAQYGKDHTSRK----VTKDEFMSGEPIFTKYFQNLVKD-----AEGKAAVEKFLKHVFPMMAAEI-----------------------------
		Homo_sapiens_Mb                         -------------------------------------------------------------MGLSDGEWQLVLNVWGKVEAD--IPGHGQEVLIRLFKGHPETLEKFD-KFKHLKSEDEMKASEDLKKHGATVLTALGGILKKKGH------HEAEIKPLAQSHATKH---KIPVKYLEFISECIIQVLQSKHPGD----FGADAQGAHNKALELFRKDMASNYKELGFQG--------------------
		Lupinus_luteus_LHb                      -------------------------------------------------------------GALTESQAALVKSSWEEFNAN--IPKHTHRFFILVLEIAPAAKDLFS-FLKGTSE--VPQNNPELQAHAGKVFKLVYEAAIQLEVTG-VVVTDATLKNLGSVHVSK----GVADAHFPVVKEAILKTIKEVVGAK----WSEELNSAWTIAYDELAIVIKKEMDDAA-----------------------
		Oryza_sativa_LHb                        --------------------------------------------------MALVEDNNAVAVSFSEEQEALVLKSWAILKKD--SANIALRFFLKIFEVAPSASQMFS-FLRNSDV--PLEKNPKLKTHAMSVFVMTCEAAAQLRKAGKVTVRDTTLKRLGATHLKY----GVGDAHFEVVKFALLDTIKEEVPADM---WSPANKSAWSEAYDHLVAAIKQEMKPAE-----------------------
		Lucina_pectinata_Hb                     -------------------------------------------------------------MSLSAAQKDNVKSSWAKASAA--WGTAGPEFFMALFDAHDDVFAKFSGLFKGAAKGT-VKNTPEMAAQAQSFKGLVSNWVDNLDN---AGALEGQCKTFAANHKAR----GISAGQLEAAFKVLIAGFMKSYGG-------D--EGAWTAVAGALMGEIEPNN---------------------------
		Synechocystis_sp._PCC6803_cyanoHb       --------------------------------------------------------------------MSTLYEKLG---GTTAVDLAVDKFYERVLQD--DRIKHFF-ADVD--------KAKQRAHQ-KAFLTYAFGGTDKYDG-----------RYMREAHKELVENHGLNGEHFDAVAEDLLATLKEMGV------PEDLIAEVAAVAGAPAHKRDVLNQ---------------------------
		Mycobacterium_tuberculosis_HbN          ---------------------------------------------------------MGLLSRLRKREPISIYDKIG---GHEAIEVVVEDFYVRVLAD--DQLSAFF-SGTN--------MSRLKGKQ-VEFFAAALGGPEPYT-----------GAPMKQVHQGR----GITMHHFSLVAGHLADALTAAG-------VPSETITEILGVIAPLAVDVTSGESTTAPV---------------------
		Vitreoscilla_stercoraria_Hb             ----------------------------------------------------------------MLDQQTINIIKATVPVLKEHGVTITTTFYKNLFAKHPEVRPLFD-MGRQ-----------ESLEQPKALANTVLAAAQNIEN---LPAILPAVKKIAVKHCQAG----VAAAHYPIVGQELLGAIKEVLGDA----ATDDILDAWGKAYGVIADVFIQVEADLYAQAVE------------------
		Escherichia_coli_Hmp                    --------------------------------------------------------------MLDAQTIATVKATIPLLVET--GPKLTAHFYDRMFTHNPELKEIFN-MSNQRN--------GDQREALFNAIAAYASNIEN------LPALLPAVEKIAQKHTSF----QIKPEQYNIVGEHLLATLDEMFS------PGQEVLDAWGKAYGVLANVFINREAEIYNENAS------------------
		Cupriavidus_necator_FHb                 --------------------------------------------------------------MLTQKTKDIVKATAPVLAEH--GYDIIKCFYQRMFEAHPELKNVFN-MAHQE--------QGQQQQALARAVYAYAENIED------PNSLMAVLKNIANKHASL----GVKPEQYPIVGEHLLAAIKEVLGNA----ATDDIISAWAQAYGNLADVLMGMESELYERSAE------------------
		Physeter_catodon_Mb                     -------------------------------------------------------------MVLSEGEWQLVLHVWAKVEAD--VAGHGQDILIRLFKSHPETLEKFD-RFKHLKTEAEMKASEDLKKHGVTVLTALGAILKKKG------HHEAELKPLAQSHATKH---KIPIKYLEFISEAIIHVLHSRHPGD----FGADAQGAMNKALELFRKDIAAKYKELGYQG--------------------
		Equus_caballus_Mb                       --------------------------------------------------------------GLSDGEWQQVLNVWGKVEAD--IAGHGQEVLIRLFTGHPETLEKFD-KFKHLKTEAEMKASEDLKKHGTVVLTALGGILKKKGH------HEAELKPLAQSHATKH---KIPIKYLEFISDAIIHVLHSKHPGD----FGADAQGAMTKALELFRNDIAAKYKELGFQG--------------------
		Riftia_pachyptila_Hb                    ---------------------------------------------------------DYVCGPLQRLKVKRQWAEAYGSG--NSREEFGHFIWSHVFQHSPAARDMFKRVR------GDNIHTA2PAFRAHATRVLGGLDMCIALLDD-EPVLNTQLAHLAKQHETRG----VEAAHYDTVNHAVMMGVENVIGSE------VFDQDAWKPCLNVITNGIQG-----------------------------
		Ascaris_suum_Hb                         ------------------------------------------------------------ANKTRELCMKSLEHAKVDTS--NEARQDGIDLYKHMFENYPPLRKYFK--SREEYTAEDVQNDPFFAKQGQKILLACHVL-CAT-YDD-RETFNAYTRELLDRHARDHV--HMPPEVWTDFWKLFEEYLGKKTTL------DEPTKQAWHEIGREFAKEINKHGR--------------------------
	;
END;

BEGIN CODONS;
CODESET * UNTITLED = Universal: all ; 
 END;

BEGIN ASSUMPTIONS;
OPTIONS DEFTYPE = unord PolyTcount = MINSTEPS ; 
 END;