#NEXUS [saved by seaview on Thu Nov 13 11:49:58 2014] BEGIN DATA; DIMENSIONS NTAX=27 NCHAR=741; FORMAT DATATYPE=PROTEIN GAP=- ; MATRIX [1] APyrobaculum -------------------------------------MSGKIEYISGPVVKAE----LPG ARLYELVFVGEI-------K----LFGEVVRIQGE-KAFIQVYE-DTTGLK-PGEPVERT GEPLSAWLGPTIIGKIYDGVQRPLRNIEEISKNPFIARGIGYDKAPPLDLKAEFDFKP-- AVKPGEEVYPGDVLGSVKETEPM-THYILYPPLPEH----------APGVVEWI-ADGKY KVDD--VIARVKTKRGVVEVKMWHKWPVRRPRPFKEKLPPVEPLITGVRTVDTMFPIAKG GTAAVPGPFGSGKTVMIRTLSMF--------------------AQSRFIIPVLCGERGNE AADALQGLLKLKD---PSTGRP------------LLERTTIIVNTSNMPVAAREASVYMG TTLGEYFRD-QGYDVLVLADSTSRWAEAMREVALRIGEMPSEEGYPAYLPTRLAEFYERA GRVVLYGSKE----------------------------RVGSLTIAASVSPPGGDFTEPV TSNTLRFIGAFWPLSPRLAYSRHYPAIDWLVAFSRYVDTVEVWWSKNVSPEWRRIRDALQ SILVKEAELQEIVRILGTEALSEYEKHILNVAFMIREGFLKQDAYNPVDTPSAPIKQFLL MKAIYTYYEEGLKAIE-------SGVPASVLRELETVKRLPRLRME------VTNDVAKE ELTKFIESLVAEIRATTNRRG [2] ACyanidium ----------------------------MTTVRVNGMKNGIIKKVSGPVVSAEN---MDG AAMYELVRVGNE-------Q----LVGEIIRLEGS-VATIQVYE-ETSGLT-IGDPVLCT GSPLSVELGPGLMGNIFDGIQRPLEKIAERSNSVFIPRGV---NVPALDRKKVWEFRPAD NLKVGDPITAGDIYGIVPETPLI-DHKIMLPP-N------------QMGKIVFLAPPGDY TLED--TVLEIDFNGQKKKFSMVHQWPVRLPRPVTEKLRADKPLLTGQRVLDALFPSVQG GTCAIPGAFGCGKTVISQALSKF--------------------SNSDGIVYVGCGERGNE MAEVLKDFPELTMTVGD-REES------------IMKRTLLVANTSNMPVAAREASIYTG ITVSEYYRD-MGLNISMMADSTSRWAEALREISGRLAEMPADSGYPAYLAARLASFYERA GKVSCLGSPN----------------------------RQGSITIVGAVSPPGGDFSDPV TSATLGIVQVFWGLDKKLAQRKHFPSVNWLISYSKYMKALEPYY-EERFPEFLNYQQKAR EILQTEDDLMEIVQLVGKDSLAENDKITLEVAKMIREDFLAQNSFTEYDRFCPFYKSVLM LRNMIHFYELANKAVE--GSGE-QHLTLAQIKEQMGETIYKISGMKFLDPA-QGWSLF-- --------------------- [3] A1Homo1_Ho ---------------------MDFSKLPKILDEDKESTFGYVHGVSGPVVTACD---MAG AAMYELVRVGHS-------E----LVGEIIRLEGD-MATIQVYE-ETCGVS-VGDPVLRT GKPLSVDVGPGIMGAIFDGIQRPLSDISSQTQSIYIPRGV---NVSALSRDIKWDFTPCK NLRVGSHITGGDIYGIVSENSLI-KHKIMLPP-R------------NRGTVTYIAPPGNY DTSD--VVLELEFEGVKEKFTMVQVWPARQVRPVTEKLPANHPLLTGQRVLDALFPCVQG GTTAIPGAFGCGKTVISQSLSKY--------------------SNSDVIIYVGCGERGNE MSEVLRDFPELTMEV-DGKVES------------IMKRTALVANTSNMPVAAREASIYTG ITLSEYFRD-MGYHVSMMADSTSRWAEALREISGRLAEMPADSGYPAYLGARLASFYERA GRVKCLGNPE----------------------------REGSVSIVGAVSPPGGDFSDPV TSATLGIVQVFWGLDKKLAQRKHFPSVNWLISYSKYMRALDEYY-DKHFTEFVPLRTKAK EILQEEEDLAEIVQLVGKASLAETDKITLEVAKLIKDDFLQQNGYTPYDRFCPFYKTVGM LSNMIAFYDMARRAVETTAQSD-NKITWSIIREHMGDILYKLSSMKFKDPLKDGEAKIKS DYAQLLEDMQNAFRSLED--- [4] AGiardia ------------------------------MVTSETTSNGLIQSIAGPVVTATN---MTG CFMFEVCYVGKA-------R----LIGEIIQLKGD-SAVIQVYE-DTSGLE-VNDCVYKS GRLLSVHLGPGLLSSIYDGIQRPLEKIAQITNSHFIPRGI---SAPALDLERRWTFRP-- LVKLGDLLSVGDIFGIVPENDLL-ECKIMLQSMDSTRLQMRKRTFQAERLLKYVRPTDAY TVKDEEKILVLEYAGQRYYYGLAHYHPVRSPKKVFKKLPCINPLITGQRTLDGLFPLAIG ATAAIPGGFGCGKTVVSQSISKY--------------------GNTDVIVYIGCGERGNE MAEILTDFPEMTFEAKKRVIGPSGQQEIKTVVSDIFSRTVLVANTSNMPVAAREASIYTG ITISEFFRD-QGYNVTLLADSTSRWAEALREISGRLGGIPGEGGYPADLTSKLSHFYERA GRVICLGNSNGAWSPENILDPTSGAISSTEQGLLQPGQRIGSVSVIGAVSPAAGDLSDAV AVSTLAIVQVFWGLSKNLANGKHFPSVDWLISYSRCTETLAPWY-NARDISFLTNKEKAK TLLQNEVAIQETAQLVGYDSLDDSEKLILDVCNLIQEGFLQQNSYTVYDKFCPFIKTDLM LRNIVHYYESCKTALG-------QGHSYQELKNSLEKLITALYRMKFIDTNTNGIEYGVT ELDKLHAQITAAFDAL----- [5] AArabidopsis ------------------MPAFYGGKLTTFEDDEKESEYGYVRKVSGPVVVADG---MAG AAMYELVRVGHD-------N----LIGEIIRLEGD-SATIQVYE-ETAGLT-VNDPVLRT HKPLSVELGPGILGNIFDGIQRPLKTIARISGDVYIPRGV---SVPALDKDCLWEFQP-N KFVEGDTITGGDLYATVFENTLM-NHLVALPP-D------------AMGKITYIAPAGQY SLKD--TVIELEFQGIKKSYTMLQSWPVRTPRPVASKLAADTPLLTGQRVLDALFPSVLG GTCAIPGAFGCGKTVISQALSKY--------------------SNSDAVVYVGCGERGNE MAEVLMDFPQLTMTLPDGREES------------VMKRTTLVANTSNMPVAAREASIYTG ITIAEYFRD-MGYNVSMMADSTSRWAEALREISGRLAEMPADSGYPAYLAARLASFYERA GKVKCLGGPE----------------------------RNGSVTIVGAVSPPGGDFSDPV TSATLSIVQVFWGLDKKLAQRKHFPSVNWLISYSKYSTALESFY-EKFDPDFINIRTKAR EVLQREDDLNEIVQLVGKDALAEGDKITLETAKLLREDYLAQNAFTPYDKFCPFYKSVWM MRNIIHFYNLANQAVERAAGMDGQKITYTLIKHRLGDLFYRLVSQKFEDPA-EGEDTLVE KFKKLYDDLNAGFRALEDETR [6] AHalobacterium -----------------------------MSQAEAITDTGEIESVSGPVVTATG---LD- AQMNDVVYVGDE-------G----LMGEVIEIEGD-VTTIQVYE-ETSGIG-PGQPVDNT GEPLTVDLGPGMLDSIYDGVQRPLDVLEDEMGA-FLDRGV---DAPGIDLDTDWEFEP-- TVEAGDEVAAGDVVGTVDETVSI-EHKVLVPPRS------------DGGEVVAV-ESGTF TVDD--TVVELDTGE---EIQMHQEWPVRRQRPTVDKQTPTEPLVSGQRILDGLFPIAKG GTAAIPGPFGSGKTVTQQSLAKF--------------------ADADIVVYIGCGERGNE MTEVIEDFPELPD---PQTGNP------------LMARTTLIANTSNMPVAGRESCIYTG ITIAEYYRD-MGYDVALMADSTSRWAEAMREISSRLEEMPGEEGYPAYLAARLSEFYERA GYFENFNG------------------------------TEGSISVIGAVSPPGGDFSEPV TQNTLRIVKTFWALDSDLAERRHFPAINWDESYSLYKDQLDPWFTDNVVDDWAEQRQSAV DILDEESELEEIVQLVGKDALPEDQQLTLEVARYIREAWLQQNALHDVDRYCPPEKTYAI LSGIKTLHEESFEALD-------AGVPVEEITSIDAAPRLNRLGT-------TPDDEHEA EVAEIKQQITEQLRELY---- [7] ANeurospora ------------------------MAPQQNGAEVDGIHTGKIYSVSGPVVVAED---MIG VAMYELVKVGHD-------Q----LVGEVIRINGD-QATIQVYE-ETAGVM-VGDPVLRT GKPLSVELGPGLLNNIYDGIQRPLEKIAEASNSIYIPRGI---ATPALDRKKKWEFTP-- TMKVGDHIAGGDVWGTVYENSFISVHKILLPP-R------------ARGTITRIAEKGEY TVEE--KILEVEFDGKKTEYPMMQTWPVRVPRPAAEKHSANQPFLVGQRVLDALFPSVQG GTVAIPGAFGCGKTVISQSVSKF--------------------SNSDVIVYVGCGERGNE MAEVLKDFPELSIEV-DGRKEP------------IMKRTTLIANTSNMPVAAREASIYTG ITVAEYFRD-QGMNVAMMADSSSRWAEALREISGRLGEMPADQGFPAYLGAKLASFYERA GKVQALGSPP----------------------------REGSVSIVGAVSPPGGDFSDPV TSATLGIVQVFWGLDKKLAQRKHFPSINTSVSYSKYLTILDKWY-EREYPDFPRLRDRIR QLLSDSEELDQVVQLVGKSALSDPDKITLDMATLIKEDFLQQNGYSDYDQFCPIWKTEWM MKLMMGFHDEAQKAIA-------QGQNWNKVREATQDLQAQLKSLKFEVPS-EGQEKICK KYEAIQQQMLDKFASVIDE-- [8] APlasmodium ----------------------------MTKVAVEKEEPGVVYKVAGSLVIAEN---MSG TRMYELAKVGWN-------K----LVGEIIRLEGN-YAYIQVYE-DTSGLS-VGDPVIKT GNALSVELGPGILDNIYDGIQRPLERIANVCGDVYIYKGI---DMTSLDHDKQWQFYADK KLKLNDIVTGGDIFGFVDENKLFKEHKIMAPP-N------------AKGRLTYIAPDGSY TLKD--KIFELEYQGKKYTYGLSHLWPVRDPRPVLEKVTGDTLLLTGQRVLDSLFPTVQG GTCAIPGAFGCGKTCVSQALSKY--------------------SNSEVIIYVGCGERGNE MAEILSDFPELTTKV-DNEDVG------------IMQRTCLVANTSNMPVAAREASIYTG ITLCEYFRD-MGYNATMMADSTSRWAEALREISGRLAEMPADSGYPAYLGARLASFYERA GKVKCIGSPS----------------------------RIGSITIVGAVSPPGGDFSDPV TTATMSIVQAFWGLDKKLAQRKHFPSVNWSTSFSKYVRQLEQYF-DNFDQDFLSLRQKIS DILQQESDLNDIVQLVGKDSLSEDQKVVMEVAKIIREDFLQQNAFSDYDYMCPLQKTVGM MRIICHFYAQCLRTLQEYDSRE-RKIGWGSIYNTLRPTINKITHMKFENPK-NSDEYFKK YFKALEEEITVGLRNLMEK-- [9] ASulfolobus -----------------------------------MVSEGRVVRVNGPLVIADG---MRE AQMFEVVYVSDL-------K----LVGEITRIEGD-RAFIQVYE-STDGVK-PGDKVYRS GAPLSVELGPGLIGKIYDGLQRPLDSIAKVSNSPFVARGV---SIPALDRQTKWHFVP-- KVKSGDKVGPGDIIGVVQETDLI-EHRILIPP-N------------VHGTLKELAREGDY TVED--VVAVVDMNGDEIPVKMYQKWPVRIPRPYKEKLEPVEPLLTGIRVLDTVFPIAKG GTAAIPGPFGSGKTVTLQSLAKW--------------------SAAKVVIYVGCGERGNE MTDELRSFPKLKD---PWTGKP------------LLLRTILVANTSNMPVAARESSIYVG VTMAEYFRD-QGYDVLLVADSTSRWAEALRDLGGRMEEMPAEEGFPSYLPSRLAEYYERA GRVIALGNPE----------------------------RYGSVTIASAVSPPGGDFTEPV TSNTLRFVRVFWPLDVSLAQARHYPAINWIQGFSAYVDLVAQWWHKNVDPNWKEMRDTMM KVLIREDELRQIVRLVGPEELAEKDKLVLEAAKLIKDAFLKENAYDDIDAFSSPQKQVRI MRLIYIFYNQSQDLIS-------KGVPLKKILDKVGPIEPEIIRIKY-----TIKNDELN KIDEIENKLKATFDSLLKEVS [10] AMethanosarcina -----------------------------------MEVKGEIYRVSGPVVTAIG---LQ- AKMYDLVKVGNE-------G----LMGEVIQILGP-KTIIQVYE-ETAGIK-PGEPCVST GSSLSVELGPGLLSSIYDGVQRPLHVLLEKMGS-FIQRGV---SADGLDHKKLWDFKP-- IVKKGDSVKGGDVIGVVQETVNI-EHKIMVPP-D------------ISGTISDI-KSGNF TVVD--TICTLTDGT---ELQMMQRWPVRRPRPVKAKLTPTRPLVTGMRILDGLFPVAKG GTAAIPGPFGSGKTVTQQSLAKW--------------------SDTEIVVYIGCGERGNE MADVLSEFPELED---PQTGRP------------LMERTVLIANTSNMPVAAREASVYTG ITIAEYYRD-MGLDVSLMADSTSRWAEAMREISSRLEEMPGEEGYPAYLSARLAEFYERA GVAESLCG------------------------------ETGSITVIGAVSPPGGDFSEPV TQNTLRIVKVFWALDAKLSQRRHFPAINWLNSYSLYKDSLNDWFADNVAPDYVPLRERAM EMLQTESELQEIVQLVGSDALPDDQQLLLEITRMLREIFLQQNAFHPVDAYSPFDQQYKI LKAIMKWGDAAMDALK-------SGVPVTEIIKLESKNVLAKV---------KYEEKFDE SMNAVLAQMDKEFASLRGR-- [11] alpE.coli -----------MQLNSTEISELIKQRIAQFNVVSEAHNEGTIVSVSDGVIRIHG---LAD CMQGEMISLPGN------------RYAIALNLERD-SVGAVVMG-PYADLA-EGMKVKCT GRILEVPVGRGLLGRVVNTLGAPID------------------GKGPLDHDGFSAVEA-- ------------------------------------------------------------ -----------------------------IAPGVIERQSVDQPVQTGYKAVDSMIPIGRG QRELIIGDRQTGKTALAIDAIINQR------------------DSGIKCIYVAIGQKAST ISNVVRKLEEHG----------------------ALANTIVVVATASESAALQYLARMPV ALMGEYFRD-RGEDALIIYDDLSKQAVAYRQISLLLRRPPGREAFPGDVFYLHSRLLERA ARVNAEYVEA-------------FTKGEVKG-------KTGSLTALPIIETQAGDVSAFV PTNVISITDGQIFLETNLFNAGIRPAVNPGISVSRVGGA-------AQTKIMKKLSGGIR TALAQYRELAAFSQF--ASDLDDATRKQLDHGQKVTE-LLKQKQYAPMSVAQQSLVLFAA ERGYLADVELSKIGSF-------EAALLAYVDRDHAPLMQEINQTG------GYNDEIEG KLKGILDSFKATQSW------ [12] alpAquifex ----------MATLTYEEALEILRQQIKDFEPEAKMEEVGVVYYVGDGVARAYG---LEN VMAMEIVEFQGG------------QQGIAFNLEED-NVGIIILG-SETGIE-EGHIVKRT GRILDAPVGEGLVGRVIDPLGNPLD------------------GKGPIQFEYRSPVEK-- ------------------------------------------------------------ -----------------------------IAPGVVKRKPVHEPLQTGIKAIDAMIPIGRG QRELIIGDRATGKTTVAIDTILAQK------------------NSDVYCIYVAVGQKRAA IARLIELLEREG----------------------AMEYTTVVVASASDPASLQYLAPFVG CTIGEYFRD-NGKHALIIYDDLSKHAEAYRQLSLLMRRPPGREAYPGDVFYLHSRLLERA AKLNDDL-------------------------------GAGSLTALPIIETKAGDVAAYI PTNVISITDGQIYLEADLFNKGIRPAINVGLSVSRVGGA-------AQIKAMKQVAGTLR LELAQFRELEAFVQF--ASELDKATQQQINRGLRLVE-LLKQEPYNPIPVEKQIVLIYAG THGYLDDIPVESVRKF-------EKELYAYLDNERPDILKEISEKK------KLDEELEK KIKEALDAFKQKFVP------ [13] alphaGeobacter -----------MEIRAEEISEIIRKQIKEYGKEVEVAETGTIISVGDGIARIHG---LDK AMAGELLEFPGG------------VSGMVLNLEED-NVGAAILGEDNENIK-EGTTVKRT GRIVEVPVGEALIGRVVNAIGQPID------------------GKGPINTTTFGKVEV-- ------------------------------------------------------------ -----------------------------KAPGIVKRKSVHQPMQTGLKAIDSMVPIGRG QRELIIGDRQTGKTAVAIDTIINQK------------------GGDLICIYVAIGQKRST VAQVVSKLQEYG----------------------AMDYTIVVSASASEPAPLQFIAPYTG VTMGEYFRD-NGKHALIIYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERA AKLSDDC-------------------------------GAGSLTALPIIETQAGDVSAYI PTNVISITDGQIYLESDLFYSGVRPAINVGLSVSRVGGS-------AQVKAMKQVAGTLR LNLAQYREMAAFAQF--GSDLDKATQMQLARGERLVE-ILKQPQYRPIPNEKQVLVIFAA NNGFVDEYPVSSLRRY-------ESELYSFFDSRKADILAELRDKK------AIDDDLKA KMIAALEELKKEFTA------ [14] alpha_Thermoto -----------------------------------------VIQVGDGIARAYG---LNK VMVSELVEFVET-------G----VKGVAFNLEED-NVGIIILG-EYKDIK-EGHTVRRL KRIIEVPVGEELLGRVVNPLGEPLD------------------GKGPINAKNFRPIEI-- ------------------------------------------------------------ -----------------------------KAPGVIYRKPVDTPLQTGIKAIDSMIPIGRG QRELIIGDRQTGKTAIAIDTIINQK------------------GQGVYCIYVAIGQKKSA IARIIDKLRQYG----------------------AMEYTTVVVASASDPASLQYIAPYAG CAMGEYFAY-SGRDALVVYDDLSKHAVAYRQLSLLMRRPPGREAYPGDIFYLHSRLLERA VRLNDKL-------------------------------GGGSLTALPIVETQANDISAYI PTNVISITDGQIYLEPGLFYAGQRPAINVGLSVSRVGGS-------AQIKAMKQVAGMLR IDLAQYRELETFAQF--ATELDPATRAQIIRGQRLME-LLKQEQYSPMPVEEQVVVLFAG VRGYLDDLPVEEVRRF-------EKEFLRFMHEKHQDILDDIKTKK------ELTSETEE KLKKAIEEFKTTFRV------ [15] B_Homo MEIDSRPGGLPGSSCNLGAAREHMQAVTRNYITHPRVTYRTVCSVNGPLVVLDR---VKF AQYAEIVHFTLP--D--GTQ----RSGQVLEVAGT-KAIVQVFE-GTSGIDARKTTCEFT GDILRTPVSEDMLGRVFNGSGKPID------------------KGPVVMAEDFLDING-- ------------------------------------------------------------ -----------------------------QPINPHSRIYPEEMIQTGISPIDVMNSIARG QKIPIFSAAGLPHNEIAAQICRQAGLVK------KSKAVLDYHDDNFAIVFAAMGVNMET ARFFKSDFEQNG----------------------TMGNVCLFLNLANDPTIERIITPRLA LTTAEFLAYQCEKHVLVILTDMSSYAEALREVSAAREEVPGRRGFPGYMYTDLATIYERA GRVEG---------------------------------RGGSITQIPILTMPNDDITHPI PDLTGFITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGE--GMTRKDHGDVSNQLY ACYAIGKDVQAMKAVVGEEALTSEDLLYLEFLQKFEKNFINQGPYENRSMFESLDLSWKL LRIF-------------------PKEMLKRIPQAVIDEFYSR----------EGRLQDLA PDTAL---------------- [16] B_Cyanidium ----------------MEAFNLHKKAVSRDYIVKPRLEYRTVSAVNGPLIILQN---VKS PRFAEIVNVTLG--D--GSV----RRGQVLEINQD-KAVVQIFE-GTTGIDNKKTVCQFT GEILKTPVSLDMLGRVFNGSGKPID------------------GGPPILPEAYLDIQG-- ------------------------------------------------------------ -----------------------------QPINPQSRTYPEEMFETGISSIDVMNSIARG QKIPLFSGAGLPHNEVAAQICRQVCLVST--CTLVKRSGKD--EEDFAIVFAAMGVNMET ARFFRQDFEENG----------------------AMERVTLFLNLANDPTIERIITPRLA LTFAEYLAYEKGKHVLVILTDMSAYADALREVSAAREEVPGRRGYPGYMYTDLATIYERA GRVEG---------------------------------RPGSITQLPILTMPNDDITHPI PDLTGYITEEQIYLDRQLHNRQIYPPINVLPSLSRLMKSAIGE--GMTRKDHSDVSNQLY AAYAMGKDALAMRAVVGVEALSQEDLLYLEFHDKFERRFVNQGAYERRDIYTSLDMAWDL LRIF-------------------PVQMLRRIPEKILQEYYHR----------TSNYEHKE NKPHSSRS------------- [17] B_Arabidopsis --------------MSLSVNMGTNDLDIEEGTLEIGMEYRTVSGVAGPLVILDK---VKG PKYQEIVNIRLG--D--GST----RRGQVLEVDGE-KAVVQVFE-GTSGIDNKFTTVQFT GEVLKTPVSLDMLGRIFNGSGKPID------------------NGPPILPEAYLDISG-- ------------------------------------------------------------ -----------------------------SSINPSERTYPEEMIQTGISTIDVMNSIARG QKIPLFSAAGLPHNEIAAQICRQAGLVKR--LEKTVDLLEDHGEDNFAIVFAAMGVNMET AQFFKRDFEENG----------------------SMERVTLFLNLANDPTIERIITPRIA LTTAEYLAYECGKHVLVILTDMSSYADALREVSAAREEVPGRRGYPGYMYTDLATIYERA GRIEG---------------------------------RKGSITQIPILTMPNDDITHPT PDLTGYITEGQIYIDRQLHNRQIYPPINVLPSLSRLMKSAIGE--GMTRKDHSDVSNQLY ANYAIGKDVQAMKAVVGEEALSSEDLLYLEFLDKFERKFVMQGAYDTRNIFQSLDLAWTL LRIF-------------------PRELLHRIPAKTLDQFYSR----------DSTS---- --------------------- [18] B_Halobacterium -----------------------------------MKEYQTITEVSGPLVYVET---DEP IGYDEIVEIETP--N--GDV----KRGQVLESSDG-FVAIQVFE-GTEGVG-KDASVRFL GETLKMPVTEDLLGRVLDGSGNPID------------------GGPDIVPDDRVDIVG-- ------------------------------------------------------------ -----------------------------EAINPHAREYPEEFIQTGVSGIDGMNTLVRG QKLPIFSGSGLPHSDLALQIARQASVPE------EEAETDDDEGSEFAVVFGAMGITAEE ANEFMDDFERTG----------------------ALERSVVFMNLADDPAVERTVTPRMA LTTAEYLAFEKDYHVLVILTDMTNYCEALRQIGAAREEVPGRRGYPGYMYTDLAQLYERA GRIEG---------------------------------KEGSVTQIPILTMPGDDDTHPI PDLTGYITEGQIMMNRDLNSQGVTPPVNVLPSLSRLMDDGIGE--GLTRADHGDVSDQLY AAYAEGEELRDLVNIVGREALSERDNRYLDFADRFEAEFIDQGFKTNRDIEETLDLGWEL LSMF-------------------PKTELNRVDEDLIEDHYV--------------EDVAD EATAD---------------- [19] B_Methanosarcina ----------------------------------MVKEYKTITQIAGPLIFVEK---TEP VGYNEIVNIKMT--D--GTV----RRGQVLDSSSD-IVVVQVFE-GTGGLD-KDCGVIFT GETLKLPASIDLLGRILSGSGDPRD------------------GGPRIVPDQLLDING-- ------------------------------------------------------------ -----------------------------AAMNPYARLPPKDFIQTGISTIDGTNTLVRG QKLPIFSASGLPHNEIALQIARQASVP--------------GSESAFAVVFAAMGITNEE AQYFMSDFEKTG----------------------ALERAVVFLNLADDPAVERIVTPRMA LTAAEYLAYEHGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLATLYERA GIVKG---------------------------------AKGSVTQIPILSMPGDDITHPI PDLSGYITEGQIVVARELHRKGIYPPINVLPSLSRLMNSGIGP--GKTREDHKAVSDQMY AGYAEGRDLRGLVAIVGKEALSERDTKFLEFADLFEDKFVRQGRNENRTIEDTLEIGWQI LTHL-------------------PENQLGRIDNKYIQKYHP--------------AHRKA K-------------------- [20] BPyrobaculum -------------------------------MLTPVVSYTTVREVKGPLIVIEK---TRG VSYGEVGEVIGP--D--GEP----RRVQVIEVGTD-YAVAQVLG-GTLGLPAKGSTVRFY GKTLKIPVSEQLIGRILDGKGQPRD------------------HMPLPPPEDFRDVNG-- ------------------------------------------------------------ -----------------------------EPLNPYSREYPEEPIETGISAIDGLYTLVRG QKLPIFSGTGLPHNLMAAQVVRQATVR--------------GSEEEFAVVFVGVGIKTEE ALFFMDEFRKTG----------------------ALRRAVAVLNLASDPVAERILAPRVG LTIGEYLAWQLGYHVLVVITDMTNYCEGLRELSSGRGELPGRRGYPGYMYTDLATIYERA GRARG---------------------------------RRGSVTQFPILTMPHDDITHPI PDLTGYITEGQLVLSRAMWGKGIYPPFDVIMSLSRLAKDAIGE--GKTREDHKDVANTLI AAYSKALEIRNLATLVGERNLGWRERRYLRFADAFEQRFIKQGYYERRSFEETLDIGWDV LSIL-------------------PEDELTNARPQITQKFYR------------------- --RHIFESVQL---------- [21] BGiardia --------------------MSLATNITPTPKIHPLPCYSSISSINGPIVVVDK---VQR QCYGEIVTLRLG--N--GEI----RTGKVLECHGS-QAVLQVFE-GTEGLDIKQTSAKFT GEVMKVGVSRALLGRTLSGSGEIID------------------GGAPVLAEEIRDIEG-- ------------------------------------------------------------ -----------------------------SSLNPVSREYPKNCLETGISTIDILTSICQG QKILLLSGSGLPYNPLLAQIARNARVCVSWEKAVTGEEIKTSEDDKFMIVFAGIGLSHEQ AMFFKTQFEQTG----------------------ALNRSVILLNLASDPVVQRISTPRIA VTIAEYFAYTLGYHVLVLLSDIFNYADALRQISSARNEVPGRKGYPPYLYSDLSTIYERA GRVHG---------------------------------IKGSITQIPLITLPNDDITHII ADLSAFITEGQIFQDRKLFNKNIIPAVDPLPSLSRLQKSAIGK--GRTREDHPDVANQLY ASYAIAVEVLSLKSIVGSEGLSDNDHKYLKFLEVFEEQFLKQDFNTRRSIYESLDLAWKC LRVL-------------------PINLLSRISDSILEKYYYVQT--------DAAEQPGA KTK------------------ [22] BNeurospora ---------------------MADPRVPSSYNVTPRIRYNTVGGVNGPLVILDN---VKF PRYNEIVTLTLP--D--GTQ----RSGQVLEARGN-RAVVQVFE-GTSGIDVKKTKVEFT GESLKLGVSEDMLGRIFDGSGRAID------------------KGPKVLAEEYLDING-- ------------------------------------------------------------ -----------------------------SPINPYAREYPQEMISTGISAIDTMNSIARG QKIPIFSAAGLPHNEIAAQICRQAGLVQR--QGITNKGVHDGHEENFSIVFGAMGVNLET ARFFTRDFEENG----------------------SLGRTTLFLNLANDPTIERIITPRLA LTTAEYYAYQLEKHVLVILTDLSSYCDALREVSAAREEVPGRRGFPGYMYTDLSTIYERA GRVAG---------------------------------RNGSITQIPILTMPNDDITHPI PDLTGYITEGQIFVDRGLHNRGIYPPINVLPSLSRLMKSAIGE--GMTRKDHGDVSNQLY AKYAIGRDAAAMKAVVGEEALSNEDKLSLEFLDKFERSFIAQGPYESRTIFESLDLAWSL LRIY-------------------RKDMLNRIPKKIIDEFYSRSAADR-----KGKGKDKP TTKDTRDTAAPEEENLIDA-- [23] BSulfolobus ------------------------------MSLLNVREYSNISMIKGPLIAVQG---VSD AAYNELVEIEMP--D--GSK----RRGLVVDSQMG-VTFVQVFE-GTTGISPTGSKVRFL GRGLEVKISEEMLGRIFNPLGEPLD------------------NGPPVIGGEKRNING-- ------------------------------------------------------------ -----------------------------DPINPATREYPEEFIQTGISAIDGLNSLLRG SKITDLSGSGLPANTLAAQIAKQATVR--------------GEESNFAVVFAAIGVRYDE ALFFRKFFEETG----------------------AINRVAMFVTLANDPPSLKILTPKTA LTLAEYLAFEKDMHVLAILIDMTNYCEALRELSASREEVPGRGGYPGYMYTDLATIYERA GKVIG---------------------------------KKGSITQMPILTMPNDDMTHPI PDLTGYITEGQIVLDRSLFNKGIYPPINVLMSLSRLMKDGIGE--GKTRDDHKDLSNQLF AAYARAQDIRGLAAIIGEDSLSEVDRKYLLFAEAFERRFVAQGVNENRSIETTVDIGWEV LSIL-------------------PESELSLIRSEYIKKYHP---------------NYRG KK------------------- [24] betE.coli ------------------------------------MATGKIVQVIGAVVDVEF-PQDAV PRVYDALEVQNG-----NER----LVLEVQQQLGGGIVRTIAMG-SSDGLR-RGLDVKDL EHPIEVPVGKATLGRIMNVLGEPVD------------------MKGEIGEEERWAIHR-- ------------------------------------------------------------ -----------------------------AAPSYEELSNSQELLETGIKVIDLMCPFAKG GKVGLFGGAGVGKTVNMMELIRNIAI-----------------EHSGYSVFAGVGERTRE GNDFYHEMTDSN----------------------VIDKVSLVYGQMNEPPGNRLRVALTG LTMAEKFRD-EGRDVLLFVDNIYRYTLAGTEVSALLGRMPSAVGYQPTLAEEMGVLQERI TST-----------------------------------KTGSITSVQAVYVPADDLTDPS PATTFAHLDATVVLSRQIASLGIYPAVDPLDSTSRQLDP------LVVGQEHYDTARGVQ SILQRYQELKDIIAILGMDELSEEDKLVVARARKIQR-FLSQ-PFFVAEVFTGSPGKYVS LKDTIRGF---------------KGIMEGEYDHLPEQAFYMV----------GSIEEAVE KAKKL---------------- [25] beta_Thermoto ---------------------------------MVKGSKGFIVSIMGPVVDVKF-PEEEL PDIYNALEVVNP---QTGQK----VVLEVEQLIGDGVVRTVAMD-STDGLT-KGLEVVDT GAPITAPVGKEVLGRILNVIGEPVD------------------EAGEIKAKERWPIHR-- ------------------------------------------------------------ -----------------------------PAPELVEQSTEIEILETGIKVIDLLAPFPKG GKIGFFGGAGVGKTVLVMELIRNIAI-----------------EHKGFSVFAGVGERTRE GNELWLEMQESG----------------------VLGNTVLVFGQMNEPPGARFRVALTA LTIAEYFRDIEGRDVLLFIDNIFRFGQAGSEVSALLGRMPSAVGYQPTSATIWENLQERI TST-----------------------------------RRGSITSVQAIYVPADDITDPA PATTFAHLDATVVLSRRIAELGLYPAVDPLDSSSKILDP------AIVGREHYEVARGVQ EVLQRYKDLQDIIAILGVEELSPEDKLVVHRARRIQR-FLSQ-PFHVAERFTGRPGRYVP IEETIRGF---------------KEILDGKLDDVPEQAFLMA----------GNIEEVKE RAKEIEELKM----------- [26] beta_Enteroc ------------------------------------MSSGKIVQVIGPVVDVEFSLDQSL PDINNALVVYKNDEK--KSK----VVLETALELGDGVIRTIAME-STDGLQ-RGMEVIDT GKAISVPVGKDTLGRVFNVLGDTIDL-----------------GSSFPEDAERSEIHK-- ------------------------------------------------------------ -----------------------------KAPSFDELSTSTEILETGIKVIDLLAPYLKG GKVGLFGGAGVGKTVLIQELIHNIAQ-----------------EHGGISVFTGVGERTRE GNDLYYEMKDSG----------------------VIEKTAMVFGQMNEPPGARMRVALTG LTIAEYFRDVEGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGQLQERI TST-----------------------------------KKGSITSIQAIYVPADDYTDPA PATAFAHLDATTNLERKLTEQGIYPAVDPLASSSSALAP------EIVGEEHYKVATEVQ HVLQRYRELQDIIAILGMDELSDQEKVLVSRARRVQF-FLSQ-NFNVAEQFTGLPGSYVP VEETVKGF---------------REILEGKYDDLPEEAFRSV----------GRIEDVVE KAKKLGY-------------- [27] beta_aquifex ---------------------------------MAEVIKGKVVQVIGPVVDVEFEGVKEL PKIKDGLKTIRRAIDDRGNWFEEVLFMEVAQHIGEHRVRAIAMG-PTDGLV-RGQEVEYL GGPIKIPVGKEVLGRIFNVAGQPID------------------EQGPVEAKEYWPMFR-- ------------------------------------------------------------ -----------------------------NPPELVEQSTKVEILETGIKVIDLLQPIIKG GKVGLFGGAGVGKTVLMQELIHNIAR-----------------FHEGYSVVVGVGERTRE GNDLWLEMKESG----------------------VLPYTVMVYGQMNEPPGVRFRVAHTG LTMAEYFRDVEGQDVLIFIDNIFRFVQAGAEVSTLLGRLPSAVGYQPTLNTDVGEVQERI TST-----------------------------------KKGSITAIQAVYVPADDITDPA PWSIFAHLDATTVLTRRLAELGIYPAIDPLESTSKYLAP------EYVGEEHYEVAMEVK RILQRYKELQEIIAILGMEELSDEDKAIVNRARRIQK-FLSQ-PFHVAEQFTGMPGKYVK LEDTIRSF---------------KEVLTGKYDHLPENAFYMV----------GTIEDVIE KAKQMGAKV------------ ; END; BEGIN NOTES; TEXT TAXON=13 TEXT='no comment '; TEXT TAXON=14 TEXT='no comment '; TEXT TAXON=15 TEXT='no comment '; TEXT TAXON=16 TEXT='no comment '; TEXT TAXON=17 TEXT='no comment '; TEXT TAXON=18 TEXT='no comment '; TEXT TAXON=19 TEXT='no comment '; TEXT TAXON=20 TEXT='no comment '; TEXT TAXON=21 TEXT='no comment '; TEXT TAXON=22 TEXT='no comment '; TEXT TAXON=23 TEXT='no comment '; TEXT TAXON=24 TEXT='no comment '; TEXT TAXON=25 TEXT='no comment '; TEXT TAXON=26 TEXT='no comment '; TEXT TAXON=27 TEXT='no comment '; END; begin mrbayes; prset aamodelpr=fixed(jones) [this sets the substititution matrix to JTT, a mdern version of PAM]; lset rates=gamma [this selects the gamma distribution to describe ASRV - this makes the program run a lot slower, you might not want to execute this option]; mcmcp samplefreq=100 printfreq=100 [this sets the frequency with which the "robot" reports results to the screen and to the files (different files for parameters (.p) and trees (.t))]; mcmcp savebrlens=yes [mcmcp sets parameters for the chain. savebrlens tells it to save the trees with branchlengths]; [mcmcp filename=ATPaseSUminus.nexus] [if you use this command, it tells the program to save the files under a certain name. This is handy, if you want to read in data from a previous run, but it usually is easier to go with the default] mcmcp ngen=5000 [this sets the number of generations to run the chain for to 5000 generations]; END;