#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 November 15, 2026; 17:21 GMT TreeBASE (cc) 1994-2008 Study reference: Xu L., Huang H., Wei W., Zhong Y., Tang B., Yuan H., Zhu L., Huang W., Ge M., Yang S., Zheng H., Jiang W., Chen D., Zhao G., & Zhao W. 2014. Complete genome sequence and comparative genomic analyses of the vancomycin-producing Amycolatopsis orientalis. BMC Genomics, . TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S15601] [ The following blocks are input data for analysis step 13425 ] BEGIN TAXA; TITLE TaxaForAnalysisStep13425; DIMENSIONS NTAX=27; TAXLABELS Actinosynnema_mirum Amycolatopsis_mediterranei Amycolatopsis_orientalis Arthrobacter_aurescens Arthrobacter_chlorophenolicus Cellulomonas_fimi Cellulomonas_flavigena Corynebacterium_diphtheriae Corynebacterium_glutamicum Frankia_sp. Mycobacterium_bovis Mycobacterium_leprae Mycobacterium_smegmatis Mycobacterium_tuberculosis Nocardia_farcinica Nocardioides Rhodococcus_erythropolis Rhodococcus_opacus Rothia_mucilaginosa Saccharomonospora_viridis Saccharopolyspora_erythraea Streptomyces_coelicolor Streptomyces_ghanaensis Streptomyces_griseoflavus Streptomyces_griseus Streptomyces_lividans Thermomonospora_curvata ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M21512] TITLE MurE; LINK TAXA = TaxaForAnalysisStep13425; DIMENSIONS NCHAR=665; 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 90 100 110 120 130 140 150 160 170 180 190 200 210 220 230 240 250 260 270 280 290 300 310 320 330 340 350 360 370 380 390 400 410 420 430 440 450 460 470 480 490 500 510 520 530 540 550 560 570 580 590 600 610 620 630 640 650 660 ] [ . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ] Actinosynnema_mirum -----------------------------MADHSPCAGSLPRVPAKLEGKVATAPPRPSRTQSVPASELAATVDARLTSPA----------------------GAPVLVTGVTLRAQHVL-PGDLFAALPGARAHGADFAAEAVRRGAVAVLTDEDGASRPELRD--------VPVLVHRDPRAALGALSARVYGE---PAQRVALWGVTGTSGKTTTSYMIESCLRAEGRV--------TGLVGTVETRIAGERLDSAFTTPEAPDLQALLAVMVERGVGDAVMEVSSHALRLGRVGGAGFAVGAFTNLSQDHLDFHPDMEDYFQAKAELFDG------RARREVVCVDGEWGRRLVKPGT-----VTVSATAPVG------------GATWTASGVRVSATGEQ-TFTAHGPDGLELAVALRLPGDFNVANALLAIGCLHAS--GVGAEAIVRGLAEVQ-----VPGRMQRVDVGQD--FTAVVDYSHKPAAVVLALDAVRARA-------TGRVITVLGCGGDRDTAKRPLMGAEAARRSEVLVVTDDNPRSEDPAAIRAAVLAGALEVPEAE--RGEVVEIGDRGAAIAHAVSLAVAGDVVVVAGKGHETGQEVAGVVHPFSDVDALTGAIQEALR------------------------- Amycolatopsis_mediterranei ------------------------------------------------MKAVPAPPRPARIDPVPLATLLARADARLIAGS--------------------PDAAELTVTGTTLRAQHVL-PGDLFAALPGARAHGADFSDQAVAAGAVAVLTDAAGAERPALRD------AGVPILVHPDPRAALGEIAAWIYGE---PSLELSVLGVTGTSGKTTTSYLVDAGLQAAGLT--------TGLIGTVETRIAGDRLVSGFTTPEAPDLQALLAVMLERGVTHVPMEVSSHALALGRVNGTRFAVGAFTNLSQDHLDFHKDMQEYFAAKSLLFDG------RSTHEVVVVDSAWGQALLTPQT-----ITVTTDPGT-------------EAAWKATDLEATPQGEQ-TFTLHGPDGARAAARIPLPGEFNVANAVLAAAILSTA--GVSLEHIVAGLAQVQ-----VPGRMERVHVGQE--FTAVVDYAHKPAAVAQGLDALRART-------EGRIITVLGCGGDRDTAKRPIMGEAAARRSDVLIVTDDNPRSEDPAAIRAAMLAGARSVGPAE--GGEILEIGDRREAIAHAVSLAGPGDIVFLAGKGHESGQEAGGVVHPFSDRDELAAAIRNKLEVSV---------------------- Amycolatopsis_orientalis ---------------------------------------------------------------MPLGTLLARAGARLVVGGD-----------------DYPAAAELTVTGSTLRAQHVL-PGDLFAALPGARAHGADFSDQAIAAGAAAVLTDEAGAERPVLRD------AGVPILVHPDPRAALGEIAAWIYGE---PSLELSVLGITGTSGKTTTSYLVDAGLKAAGLT--------TGLIGTVETRIAGERLASGFTTPEAPDLQALLAVMVERGVTHVPMEVSSHALSLGRVNGTRFAVGAFTNLSQDHLDFHKDMEEYFAAKSLLFDG------RSTAEVVVVDSAWGQALLTPHT-----VTVSTEPGT-------------DALWRATDLNPTPAGEQ-TFTLHGPEGLTAAAKIPLPGEFNVANAVLAAAILDTA--GVPLDAIVAGLAAVE-----VPGRMERVYLGQP--FTAVVDYAHKPAAVAQGLDALRART-------EGRIITVLGCGGDRDTAKRPVMGEAAVRRSEVLIVTDDNPRSEDPAAIRAAMLAGARNAGPAL--GGEILEIADRREAIVHAVELAQPGDIVLIAGKGHETGQEVQGVVHPFSDREELAAAIRRRLETV----------------------- Arthrobacter_aurescens ------------------------------------MPDAGQTG-----------FRPASVAAVPLATIAD-----------------------ALGVAAPDASQDRGVTGITLNSRAVE-TGDLYMALPGASRHGADFVPQAVEAGAVAVVTDDAGARQLALAG-----EQPVPVLIVPEPRTAVGRLAALIYRSQPADGGFPTLYGVTGTNGKTTTTYFINSLLR-ALEKK-------PGLIGTIEIVAGGEPIPSLLTTPESTDVHALLALMRERGLDAASMEVSSHAISYHRVDGVMFDVAGFTNLTQDHLDLHGSMDEYFRTKAELFTAG-----RARHAVVTVDDDWGRQLAETA-----DIPVTTLSTKP------VDGSSSSTDWKVASITARGLGSE--FELKHADGRTLRVHTGLPGDFNVANAALATVMVLAS--GVDEHTLQAALDAHDPFTVSVPGRMQLISTEPA----SVVDFAHNPDALSRALEAVRSPR------EGSRVIVVFGATGQRDKGKRPTMGAIAARLADVVIISDDDPHDEDAAAIRAEVLQGAHAARDSENLNSEIIESYPRDAAIKLAVDMATGKDTILIAGRGHEVWQEVKGVNLALDDRVELRAALTSKGFSVSADQR--IES------------- Arthrobacter_chlorophenolicus ---------------------MSDFTPSHSSAVP--AAPASKAR-----------FRPAAVEPVRLASIGA-----------------------AVGVAVPGHAADVTVTGITLNSRSVE-AGDLYVALPGASRHGADFVAQAVGAGAVAVLTDDAGARLLALGN-----DTPVPVLVVDKPRNVVGPLSAAIYGSTDGAEDDFTLFGVTGTNGKTTTTYFINSLLR-ALGTR-------SGLIGTIEILAGTEPIPSLLTTPESTEVHGLLALMRERGLGAAAMEVSSHAISYQRVDGVLFDVAGFTNLTQDHLDLHGTMDDYFATKAELFTPA-----RARRAVVTVDDEWGRRLAGTA-----GIPVTTLST---------DG-QAAADWAVATTEPRGLGTA--FTLKGPDGAELRLHTGLPGSFNVANAALAAVMVLAG--GVDHAVLQEAVDTADPFTVAVPGRMQLVAEQPA----AVVDFAHNTDALARALEAVRPPA------PDSRLIVVFGATGQRDQGKRPAMGAVAARLADTVIITDDDPHDEDAAAIRADVLAGAEHARSSESLPCEILEVFPRDEAIRRAVELAGPSDSILVAGRGHEVWQEVKGVNLALDDRVELRSALTARGFNVLQDDR--IES------------- Cellulomonas_fimi ------------------------------------------------MTSPA-RMRPQHPPTHRLADVVETFALSPDRP----------------------LDAALVTTGVTVASTDVA-PGDLFVAVPGMRVHGATYAAQAVDAGAVAVVTDAAGAELAGDLG--------VPVLVAPDPRDLAGPLAAHVLDE---PARGLVTVGVTGTNGKTTTTYFVDAALRAAHRT--------TAVLGTVELRVGDEAVESPRTTVEAPALQGILALARERGAGAVAMEVSSHALALGRVRGLTFDVVGFTNLQRDHLDFHGDMEGYFRDKARLFAPE-----QARRGVVVVDDEWGRRLAATSPVP-VETVATHVGDPH----------GADADWAVVAADIGLDGVGSTFTLRGPDGTEHAAASPLPGLVNVSNAALAIVLAHTA--GVDLATAVDAVAHAHE----IPGRMERVVERGDGLPLCLVDYAHTPDALVLALEAVRPIT-------PGRLILVFGSDGDRDQGKRPIMGQIAARLADVLVVTDENPRSEDPAVIRAAILEGVRAERPSG---TDVHEATSRAQAIRDALALATDQDTVIVTGKGHEPTQEIAGVFHRYNDRDVFLAAAAAHTPDHARAEQHA---------------- Cellulomonas_flavigena ------------------------------------------------MTSPLGRLRPERPPVRRVEDLAADLDLVTVGA----------------------PAAGLTFTGVTMSSTDVE-PGDLFVAVPGLKVHGARFAADAVARGAVAVLTDDDGVAAVP-PD--------VPVLVAHDPRSLAGPVASWALGN---PASRLVTVGVTGTNGKTTTTYFVDAALRAHHAR--------TAVLGTVELRIGDDAVESPRTTVEAPVLQALLAVAHERGAGALTTEVSSHALALGRVLGTRFDVVGFTNLQRDHLDFHGDMEGYFRDKARLFAPE-----QARRGVVVVDDAWGRRLAEEAAIP-VETVSTHVGAPE----------AAGATWAVVEADVGLDGVGSRFVLRGPDGARHVAHSPLPGLVNVSNAALAIVLAHAA--GVPLATAIEAVGGAHA----IPGRMERVVERGDGWPLCLVDYAHTPDALVLALEAVRPIT-------PGRLVIVFGSDGDRDRGKRPIMGEIAARLADVLVVTDENPRSEDPASVRAAILAGVRDVRPDL---ADVHEATSRAQAIRDALRLAGPDDTVIVTGKGHEPTQEIAGVFHRYNDRDVFLAARAEGR------EQPA---------------- Corynebacterium_diphtheriae -------------------------------------------------------MPTQSPHSCTLERLTELAGGR-----LV----------------GETTAGATEISAIGLDSSQLP-ADAIFAALPGTKTHGAHYASQGKAAAALAVLSDHEGTQILVDSG------EKRPIIEVDDVRRVLGILSAEIYGH---PSHEMTIIGVTGTSGKTTTSYILERGLMAAGLH--------VGLIGTTGTRINGRKVPTKLTTPEAPTLQQLFSQMKAEGVSHVVMEVSSHALALGRVTGTRFSAAGFTNLSQDHLDFHPTMQEYFEAKALFFDPASPI--HAEKSVVCVNDLWGKNMAERAGADA--ITVCTEQEAA----------AHQADYWVSNIDVNPVGAQ-SFIVHHG-AQSTDVHLPLPGGFNIANTVVALALAESV--GVDTDAFIRGIADVA-----VPGRMERIDRGQE--FLAVVDYAHKPAAVAVVIDTVRD-------QVPGRIAVVVGAGGDRDSGKRPIMGAEAARRADLVIVTDDNPRSEDPAKIREAVLEGAHGVAG----SADIREIGDRREAIRIAVQWAQPGDAVIVAGKGHEVGQLINGVDHHFDDREEVAAALHDQG---FDLD------------------- Corynebacterium_glutamicum -------------------------------------------------------MATTLLDLTKLIDGILKGSAQ-----GV----------------PAHAVGEQAIAAIGLDSSSLPTSDAIFAAVPGTRTHGAQFAGTDNAAKAVAILTDAAGLEVLNEAG------ETRPVIVVDDVRAVLGAASSSIYGD---PSKDFTLIGVTGTSGKTTTSYLLEKGLMEAGHK--------VGLIGTTGTRIDGEEVPTKLTTPEAPTLQALFARMRDHGVTHVVMEVSSHALSLGRVAGSHFDVAAFTNLSQDHLDFHPTMDDYFDAKALFFRADSPL--VADKQVVCVDDSWGQRMAS-VAADV--QTVS----TL----------GQEADFSATDINVSDSGAQ-SFKINAPSNQSYQVELALPGAFNVANATLAFAAAARV--GVDGEAFARGMSKVA-----VPGRMERIDEGQD--FLAVVDYAHKPAAVAAVLDTLRT-------QIDGRLGVVIGAGGDRDSTKRGPMGQLSAQRADLVIVTDDNPRSEVPATIRAAVTAGAQQGASESERPVEVLEIGDRAEAIRVLVEWAQPGDGIVVAGKGHEVGQLVAGVTHHFDDREEVRAALTEKLNNKLPLTTEEG--------------- Frankia_sp. ---------------------------------------MAVPAPTKVVTVTSPAPRPAAPPACSLADLRAVLAAVAPVPEPAAFAGAGHSPSDTHADTHADTDTDVIVHGVTHDSHAVR-PGDLHAALPGAHTHGAAFAAAAVAGGAVAVLTDAEGARRIAAMPPGP--PGEVPVLVSDDPRRDLAPVAARIYGD---PSAALRLLGVTGTNGKTTTAFLLDAGLRAAGHT--------TGLIGTIETRIADERLASARTTPEASDLQALLATMVERGVGAATMEVSSHALALHRADALHFAGAVFTNLSQDHLDFHSSMEDYFAAKASLFDPA-----RTAVAVIGVADRWGRRLAERHPG---AITFA---VEG------------PADWTARDVSYGPTGT--LLRAEGPDGLRVDLSVPLPGAFNVANTLGALALLVAI--GVPPATAAAGIGSLPG----VPGRMERVDAGQP--FLALVDFAHTPDAVTTLLETVRPLV-------KGRVIVVLGCGGDRDRGKRPLMGAAAATLADVAILTNDNPRSEDPAEILAQMLAGVTALSAS----ATVLVEPDRAAAIAAAVAEAGPQDAVVVAGKGHESGQEQAGVVTPFDDRVALRAALSSVERR------------------------ Mycobacterium_bovis ------------------------------MSSLARGISRRRTEVATQVEAAPTGLRPNAVVGVRLAALADQVGAALAEGPA-----------------QRAVTEDRTVTGVTLRAQDVS-PGDLFAALTGSTTHGARHVGDAIARGAVAVLTDPAGVAEIAGRAA-------VPVLVHPAPRGVLGGLAATVYGH---PSERLTVIGITGTSGKTTTTYLVEAGLRAAGRV--------AGLIGTIGIRVGGADLPSALTTPEAPTLQAMLAAMVERGVDTVVMEVSSHALALGRVDGTRFAVGAFTNLSRDHLDFHPSMADYFEAKASLFDPDSAL--RARTAVVCIDDDAGRAMAARAADA---ITVSAAD--------------RPAHWRATDVAPTDAGGQ-QFTAIDPAGVGHHIGIRLPGRYNVANCLVALAILDTV--GVSPEQAVPGLREIR-----VPGRLEQIDRGQG--FLALVDYAHKPEALRSVLTTLAHPD--------RRLAVVFGAGGDRDPGKRAPMGRIAAQLADLVVVTDDNPRDEDPTAIRREILAGAAEVGG----DAQVVEIADRRDAIRHAVAWARPGDVVLIAGKGHETGQRGGGRVRPFDDRVELAAALEALERRA----------------------- Mycobacterium_leprae ---------------------------------------------MTEVVAVPVRLRPSATAGVRLPELVAQVGAVLADGPG-----------------QAATVPDIPVTGVTLRAQEVL-SGDLFAALAGASTHGARYAGVALERGAVAVLTDVAGVAELTAQASS------VPILIHPEPRSVLGGLAAAAYGH---PSNRMTVVGITGTSGKTTTTYMVEAGLRAGGRV--------VGLVGTIGIRIDGADIPSFLTTPEAPALQAMLAAMVERGVETVVMEVSSHALSLGRVEGTQFAVAGFTNLSRDHLDFHPDMEEYFEAKAVLFDPHSLL--RARTVVVCIDDDAGRATAARAGDA---ITVSALG--------------QPASWRATDIRSPGVGAQ-EFTAVDPAGVQHRVGIRLPGRYNVANCLVALAILDVV--GVSPEQASLGFRDIR-----IPGRLERIDCGQD--FLALVDYAHKPGALHSVLTALLQPD--------HRLAVVFGAGGERDPGKRAPMGEIAAELADLVVVTDDNPRGEDPAAIRRDILTGTVAAGG----AAQVVEIGDRRAAIQYAVAWAGPDDVVLVAGKGHETGQRGAAETCPFDDRVELARALQVRDARLLPAPGRACQ-------------- Mycobacterium_smegmatis ---------------------------------------------------MAMKLRPSRPVGHHLAPLAAAVGAVASENPAG----------------SSSDLAAVHVTGVTLRGQDAQ-PGDLFAALPGASAHGARFAADAVAAGAVAVLTDPSGADLLAGTLD-------VPVLVHPAPRSVLGEAAAIVYGR---PAERLRVVGVTGTSGKTTTTYLAEAGLRAAGRV--------AGLIGTVGVRIDGTDLPSALTTPEAPALQALLALMVERGVDTVVMEVSSHALAQGRVDGIGFAVGGFTNLSRDHLDFHPTMADYFEAKARLFDPQSPN--HAAAAVICVDDQYGVQMAARAETP---LTVSTSG--------------AAADWRVEKITTAGPGAQ-EFVLVDPGGMHHQLGVGLPGRYNVANAALAVALLDAV--GVSPEQAAPGLRTAT-----VPGRLESIDLGQD--FLALVDYAHKPGALQAVLETLRAAEP-------RRIAVVFGAGGDRDPGKREPMGRVTAELADLVVVTDDNPRSEDPATIRSAILAGARAVAS----DAEIVEIGDRRAAIDHAVAWAQPGDIVLIAGKGHESGQTVGDHTRPFDDRDELAAALEASGKTRDRSS------------------- Mycobacterium_tuberculosis ------------------------------MSSLARGISRRRTEVATQVEAAPTGLRPNAVVGVRLAALADQVGAALAEGPA-----------------QRAVTEDRTVTGVTLRAQDVS-PGDLFAALTGSTTHGARHVGDAIARGAVAVLTDPAGVAEIAGRAA-------VPVLVHPAPRGVLGGLAATVYGH---PSERLTVIGITGTSGKTTTTYLVEAGLRAAGRV--------AGLIGTIGIRVGGADLPSALTTPEAPTLQAMLAAMVERGVDTVVMEVSSHALALGRVDGTRFAVGAFTNLSRDHLDFHPSMADYFEAKASLFDPDSAL--RARTAVVCIDDDAGRAMAARAADA---ITVSAAD--------------RPAHWRATDVAPTDAGGQ-QFTAIDPAGVGHHIGIRLPGRYNVANCLVALAILDTV--GVSPEQAVPGLREIR-----VPGRLEQIDRGQG--FLALVDYAHKPEALRSVLTTLAHPD--------RRLAVVFGAGGDRDPGKRAPMGRIAAQLADLVVVTDDNPRDEDPTAIRREILAGAAEVGG----DAQVVEIADRRDAIRHAVAWARPGDVVLIAGKGHETGQRGGGRVRPFDDRVELAAALEALERRA----------------------- Nocardia_farcinica ----------------------------------MSAEFAPPERSKVPQQSSQPVLRPVDPPSTPLTTVLELTGAH------A----------------AAPVPADVVVTGIEQRSGAVQ-PGDLFAALPGAHAHGARFAHDAVARGAVAVFTDAEGARVLDGLT--------VPVLVRERPREVLGELSAAVYGQ---PSQRLRLIGITGTSGKTTTSYLVEAGLAAAGLS--------TALIGTIETRIGGRRVPSALTTPEAPQLHAMFALMVEQGVQAVVMEVSSHALALGRVDGVRFDVGAFTNLSQDHLDFHADFEDYFAAKRRLFEPQSPV--AARTAVVCVDDAWGRRLAEGLA-----APITVSTT-------------GEADWRVAGGVATVGAEQ-EFTAAGPAG-ELGVRLRLPGRYNVANALLAVAVCAAA--RADPAVAAPALATVD-----VPGRMQRVERGQD--FLAVVDYAHKPAALESVIATLREHLAAADPEHPGRLAVVVGAGGDRDAGKRALMGAAGARGADLLVITDDNPRTEDPATIRAALRAGALEVPAEV--RGEVREIGDRAAAIEAAVAWARRGDAVLVAGKGHETGQEIAGVKHPFDDREVLAAALAGKAGAEART-------------------- Nocardioides --------------------------------------------------MVSDSNRPAQPPRTPLATVAAWAGAELRGNP-----------------------AGLEVSGISLSSQRIR-PGDLYAALPGSRAHGIEFAQDALAAGAVAVFTDEAGADRGPAGA---------PHLVVDRPRAVLGRLSARIYGE---PAASMRMVGVTGTQGKTTTTRLLEAGLQQAGVP--------AAVVGTVGTRIAGEEVRSSLTTPEAPDLHALFAVMRERDVRACAMEVSSHALVMGRVDGVVFDVAVFLNLGRDHLDFHRDLEDYYAAKASLFTPE-----RARFALVNVDDAHGRRLAEEATVP--VRTFSMGRGDD----------AQRADWRAVDVRLRATGS--EFVVVAPDGRRIPAGCALPGDFNVANTLAAVAAAAEA--GLDPAVVAAGIAAAGG----VPGRLERVDAGQD--FLVVVDYAHKPDAVEAAIRTLRPLT-------EGRVIVVLGAGGDRDPGKRPIMAGIAARLADLLVVTDDNPRTEDPAAIRAAMLAGVVT--------GQAIEVGGRRAAIREALRRAGPGDIVLIAGKGHETGQEVDGVVHPFDDREVVREEIVACSR------------------------- Rhodococcus_erythropolis ----------------------------------------MPNRLQSSNSDGAPGTRPTQPVATAITALSELSGARL-EWVGQ----------------PGSQSSEVVVKGVDLRAQGIV-ADDLFAALPGARTHGAQFAVDALGRGATAILTDEAGLELIEAAGKAP--DRSVPVLVHPNPRDVLGEISAEIYGR---PSEKMQVVGITGTSGKTTTSYLLEAAIAGAGRK--------PGLVGTIETRIDGRRVPSALTTPEAPQLHALFAVMAEQGIDTVVMEVSSHALALGRVDGIRFDIGAFTNLSQDHLDFHRDFEEYFQAKARLFDPESTV--RAEHAVVCVDDVWGRRMAELAATDESDAVTTVSTS------------TAEAEWKVGAVEVAEDGSQ-TFELVGPDGQSWPVSLRLPGRYNVANAALALTVSFAA--GLDPDAAVRALGTVD-----VPGRVQRIDRGQS--FLAVVDYAHKPAALEAVIATLRN-------QVPGRVAVVVGAGGDRDAGKRTLMGEAGARGADLLIVTDDNPRTEDPAKIRASVMQGAIDVPESE--RGEIREVGDRALAIEQAVRWAQPGDVVLVAGKGHEVGQEIDGVKHPFDDREVLGEMIGRFAINTAHGGKQ----------------- Rhodococcus_opacus --------------------------------------------MKVTD-----GLRPAQPVRTTVSALAALAGAR----VEA----------------PSGTAEHVIVTGVDLRAQGIV-EGDLFAALPGARAHGAEFAADALDRGATAILTDEAGLALVSALG------TDAPVLVHDDPRGVLGELSATIYGR---PSEKMQVIGITGTSGKTTTSYLVEGALNAAGRT--------TGLVGTIETRMSGRRVPSALTTPEAPQLHALFAVMLEQGIDTVVMEVSSHALSLGRVDGVRFDVGAFTNLSQDHLDFHRDFEDYFAAKARLFAAESSV--HAQHAVICVDDVWGRRMAEVARGAHS-IVTTVATTPE----------TGGAVWTAGPATVSASGSQ-KFALTTAEGTTLDVELRLPGQYNVANASLAVALCAVL--GVDPRDAVAGIAGVD-----VPGRVQRIDRGQD--FLAVVDYAHKPAAVEAVIATLRE-------QARGRVAVVVGAGGDRDAGKRPLMGAAAARGADLLIITDDNPRTEDPATIRAAIREGALGVPESE--RGQVWEVADRAKAIADAVGWAQAGDVVLVAGKGHEIGQEIHGVKYPFDDRAVLGDAIERQVGGTR---------------------- Rothia_mucilaginosa ----------MNDPVCLERIDHTELTASDSGEERRTMDTASHAPGQNLLGGDAQTLRPNSVRPVSLAHLREYLQGLGAQVSAQP----------ASGVQGSESGESVEVTGISMDSRGVR-PQDLYVALPGAKVHGAQFAEAALKLGASAILTDAAGAQLLG--------EAPVPVLVTENLREYVGPLAALIYGS--ASFPATHRYAVTGTNGKTTSTYMLESVFRTGLGVK-------TGLIGTIQILIDGVSVPSKMTTPESPHVHSLLTIMGQHQVRCAAMEVSSHAIDYHRVDGVKYAVAGFTNLTQDHLDLHGTMEHYFDSKAQLFTPE-----RAELAVITADDEWGEKMFSAACEQMGAQQVHRLVTARGAGLAEVPAEFGARDWAVVKVQREGLGHR--FHVDNGAGESVECYTGLPADFNVSNAALAALMAYLDTDSAERERLLPELASGSALTPVVPGRMQLISLAPH----AIVDFAHNPDGLTRALEAMDRPG------DG-KVMIVFGATGERDQLKRPIMGAIAAQYADIVVVTDDDPHGEAPEPIRAAVEEGAQKAENRR--ATQILNISPRAAAIDAAIALAGEHDAILIAGRGHETEQDVDGVDIALDDRVETARALRAHGFEILPDYQRMLEESDSKTAEGMVKND Saccharomonospora_viridis --------------------------------------MRGRSRQDNQARVVVSPPRPHLIEPVPLTTLVARADARLVADP--------------------AVAESVRVTGATLRAQHVL-PGDLFAALPGARAHGADFTADAVAGGAVAVLTDEEGASRPAVRE------SGLPVLIHPDPRGVLGSVAAWIYGE---PSLTLSVLGITGTSGKTTTSYFVESGLRAAGYH--------TGLIGTVETRIGSERLASAFTTPEAPDLQALFADMVERGVTHVAMEVSSHALALGRVNGTRFTVGAFTNLSQDHLDFHRDMEDYFSAKSLLFDG------RSTHEIVVVDSAWGQALVTPRT-----VTVSTEPDS-------------DAGWRATDITLTPGGEQ-SFTLHAPDGRKAQAVLPLPGEFNVANAVLAAAILDTV--GVDLDAVLEGLATVE-----VPGRMERVYLGQP--FTAVVDYAHKPAAVTQALRALRART-------EGRLITVIGSGGDRDTAKRPMMGEAAARGSDLVIVTDDNPRSEDPAAIREAILAGARAVGPAE--GCEVLEIGDRREAIAAAVERAEAGDVVFVAGKGHESGQEVAGVVHPFSDRDELEAAIRERFGVTE---------------------- Saccharopolyspora_erythraea -------------------------------------MDTEQLAELIGARILRAPGQ---------------------GPS----------------------GRP--VTGATLRAQHVR-PGDLFAALPGTRVHGADFAATALDAGAVAVLTDQAGVVRADLLDHPEVSAGRVALLVHDDPRAALGPAAAKIYGE---PSKQLRILGVTGTSGKTTTTYLLESALAAAGFT--------TGLVGTVETRIAGERLDSAFTTPEAPDLQALLAVMVEHGVTHVPMEVSSHALALGRVSGTRFTVGGFTNLSQDHLDFHRDLDDYFQAKALLFDG------RSEHEVVCTDTDWGRKLVKPGT-----ITVSTTG---------------DASWTATDVEAFPTGEQ-EFTAHGPGGLSLRMRLRLPGPFNIANALLAIGILHAA--EVPTWAIERGLAEVD-----VPGRMERVALGQD--FTAVVDYSHKPGAVSAVLDAARAQA-------EGRVIVVLGCGGDRDVAKRPLMGEAAARRSGLLIVTDDNPRSEDPADIRAAMLAGAEAVPAAE--RGEVIERGDRREAIAEAVARASSGDIVVVAGKGHETGQEVAGVVHPFSDREELAAALRRRLGAAHADGGDTEVHRGQGDEEAR---- Streptomyces_coelicolor -------------------------------------------------MTYPGPPRPVRISATPLAELADQLGVAAPDG-------------------------SAEITGITHDSRAVR-PGDLYAALPGARLHGADFVTQAAGLGAAAVLTDPAGAERAAAAG--------LPALVVDDPRARMGELAATIYGH---PGRDLLQIGITGTSGKTTTAYLVEGGLRTAKST---------GLIGTVEMRIGDERIKSERTTPEATDLQALFAVMRERGTEAVAMEVSSHALVLGRVDACVFDIAVFTNLSPEHMEFHSGMEDYFQAKAQLFTPK-----RSRLGVVNVDDEYGRRLAKEATVP--VVTYS---AEG----------HPDADWRADEVEVGPLDS--TFTVLGPKGERIAAKSPLAGPFNVANTLAAIVALAAA--GLDPQSAADGVAAVPG----VPGRLERVDEGQP--FFAVVDYAHKTDAVESVLRALRKVT-------EGKLHAVLGCGGDRDTTKREPMGAAVARFADTAVLTSDNPRSEDPLAILATMLQGAASVPAHE--RGEVQVFEDRAAAIAAAVARAEPGDTVLVAGKGHEQGQDIAGVVRPFDDRQVLREAIKKTQG------------------------- Streptomyces_ghanaensis -------------------------------------------------MTYPGPPRPAQVSATPLAELADQLGLPAPER-------------------------NAEVTGITHDSRAVR-PGDLYAALPGARAHGADFVAQAAGLGAVAVLTDPSGAERVAATG--------LPALVVDDPRARMGELAVTIYGH---PGRDLLQIGITGTSGKTTTAYLVEGGLKTARGTDEGGGGRRVGLIGTVEMRIGEERIKSERTTPEATDLQALFAVMRERGTDAVAMEVSSHALVLGRVDGCVFDIAVFTNLSPEHMEFHSDMEDYFRAKAQLFTPE-----RSRLGVVNVDDEYGRRLAKEAGVP--VVTYS---AEG----------HPDADWRTEDVRVGPLDS--SFTVIGPEDQRVAARSPLPGPFNVANTLAAIVALAAA--GLDPQAAADGVAAVPG----VPGRLERVDAGQP--YLAVVDYAHKTDAVESVLRTLRRVT-------EGRVHVVLGCGGDRDITKRAPMGAAAARLADTAVLTSDNPRSEDPLAILATMLQGAASVPAHE--RGEVQVFEDRAAAIAAAVARARPGDTVLVAGKGHEQGQDIAGVVRPFDDRQVLREAIKKTQG------------------------- Streptomyces_griseoflavus -------------------------------------------------MTYPGPPRPVQVSATPLAELSGQLGVAAPEQ-------------------------TAEVTGITHDSRAVR-PGDLYAALPGARAHGADFVTQAAGLGAVAVLTDPAGAERVAAAG--------LPALVVDDPRARMGELAATIYGH---PGRDLLQIGITGTSGKTTTAYLVEGGLRTVHST---------GLIGTVEMRIGDERIKSERTTPEATDLQALFAVMRERGTDAVAMEVSSHALVLGRVDGCVFDIGVFTNLSPEHMEFHSDMEDYFRAKAQLFTPE-----RGRLGVVNADDEYGRRLAKEAGVP--VVTYS---AEG----------HPDADWRAEDVEVGTMDS--TFTVVGPKGERIAARSPLPGPFNVANTLAAIVALAVA--GLDPQAAADGVAAVPG----VPGRLERVDAGQP--YLAVVDYAHKTDAVESVLRALRKVT-------EGRVHVVLGCGGDRDKTKRAPMGAAAARLADTAVLTSDNPRSEDPLSILATMLHGAATVPAHE--RGEVQVFE------------------------------------------------------------------------------- Streptomyces_griseus MTTITPDPGNRNENHRNQGPSLRETPHRPGTLTAVPHADQSQTSQKDAPVTYPGAPRPDRLRPTPLGELADRLGVEAAG--------------------------TGEVTGITHDSRAVR-PGDVYAALPGARFHGADFAAQAAGLGAAAVLTDPAGAERAAATG--------LPVLVTEDPRAVMGELAADIYGR---PGIGLLQLGITGTSGKTTTAYLVEGGLRAAGRP--------TGLIGTVEMRIGDERIKSERTTPEATDLQALFAVMRERGVEAVAMEVSSHALVLGRVDGCVFDVAVFNNLSPEHMEFHSGMEDYFQAKAQLFTPE-----RSHRGVVNFDDEYGRRLLTESGVP--VTSFS---AEG----------HPDADWHAEDVEVGPQDS--TFTAVGPKGERITARAPLPGPFNVANTLAAIVTLAVA--GVDPQIAADGIAAVPG----VPGRLERVDAGQP--YLAVVDYAHKTDAVESVLRSLRKVT-------EGRVHIVLGCGGDRDTTKRGPMGAAAARLADTAVLTSDNPRSEDPLAILAAMLSGAAEVPVHE--RGDVLVDADRASAIAAAVARAEPGDTVLVAGKGHEQGQDIHGVVRAFDDRKVLHAAIERSLTRPGAADRAPHLENNSQG-------- Streptomyces_lividans ----------------------------------------------------------MRISATPLAELADQLGVAAPDG-------------------------SAEITGITHDSRAVR-PGDLYAALPGARLHGADFVTQAAGLGAAAVLTDPAGAERAAAAG--------LPALVVDDPRARMGELAATIYGH---PGRDLLQIGITGTSGKTTTAYLVEGGLRTAKST---------GLIGTVEMRIGDERIKSERTTPEATDLQALFAVMRERGTEAVAMEVSSHALVLGRVDACVFDIAVFTNLSPEHMEFHSGMEDYFQAKAQLFTPK-----RSRLGVVNVDDEYGRRLAKEATVP--VVTYS---AEG----------HPDADWRADEVEVGPLDS--TFTVLGPKGERIAAKSPLAGPFNVANTLAAIVALAAA--GLDPQSAADGVAAVPG----VPGRLERVDEGQP--FFAVVDYAHKTDAVESVLRALRKVT-------EGKLHAVLGCGGDRDTTKREPMGAAVARFADTAVLTSDNPRSEDPLAILATMLQGAASVPAHE--RGEVQVFEDRAAAIAAAVARAEPGDTVLVAGKGHEQGQDIAGVVRPFDDRQVLREAIKKTQG------------------------- Thermomonospora_curvata ------------------------------------------------------MMRPTTNPARPLLGLVELLSAQADGPG----------------------LAKVAVTGITHDSRQVL-PGDLYVALPGTRAHGAEFAAQAAAAGAVAIWTDPAGRHRAAATG--------LPVLVTDDVRARLGEAASWVYGD---PARDLSLIGVTGTSGKTTTVYLLEAGLRAAGVD--------TAVIGTVEMRIGDTRLPSSLTTPEATDLHAIFAKMREVGVGAAAMEVSSHALAQGRVGGTCYDVAVFTNLSQDHLDYHATMADYFAAKAKLFTPA-----YSRVGVVNVDDGYGRELTRIAQVP--LTTFS---AAG----------DPSADWRAEDVRLGADGS--VFRLVGPGGIEADVSIQLPGPFNVANALAAIVALVEA--GLPLQVAAAGVGTLTG----VPGRLEPIDEGQD--FTALVDYSHKPGAVEAVLTSLREVT-------AGRLIVVLGCGGDRDRGKRPLMGETAARLADVAVLTDDNPRSEDPLAILAAMVEGVLKVPQAE--RAHLVVEPDRAAAIALALGRARRGDVVVIAGKGHEQGQYVAGRVLPFDDREVVRAELRRLVAQADGRDVAQR--------------- ; END; [ The following blocks are output data for analysis step 13425 ] BEGIN TREES; TITLE MurE; LINK TAXA = TaxaForAnalysisStep13425; TREE MurE = [&R] (((((((Rhodococcus_opacus:0.12301421,Rhodococcus_erythropolis:0.138317):0.07149712,Nocardia_farcinica:0.17090357):0.05373085,(Corynebacterium_glutamicum:0.18766694,Corynebacterium_diphtheriae:0.23342349):0.14062371):0.01397894,(Mycobacterium_smegmatis:0.15111792,(Mycobacterium_leprae:0.13134771,(Mycobacterium_tuberculosis:0.0,Mycobacterium_bovis:0.0):0.10022924):0.07413927):0.08908536):0.02518087,((Saccharopolyspora_erythraea:0.16322667,Actinosynnema_mirum:0.14622378):0.02301828,(Saccharomonospora_viridis:0.11181949,(Amycolatopsis_mediterranei:0.04768809,Amycolatopsis_orientalis:0.05566468):0.06007644):0.06385756):0.06939851):0.02684239,(Nocardioides:0.25283809,(Frankia_sp.:0.25365176,(Thermomonospora_curvata:0.22160172,(Streptomyces_griseus:0.08105669,((Streptomyces_coelicolor:0.0,Streptomyces_lividans:0.0):0.0593045,(Streptomyces_ghanaensis:0.03633298,Streptomyces_griseoflavus:0.03321376):7.1968E-4):0.04309302):0.1372464):0.038787):0.0109808):0.03226559):0.0494933,(Cellulomonas_flavigena:0.1160437,Cellulomonas_fimi:0.092988):0.22767429,(Rothia_mucilaginosa:0.38298037,(Arthrobacter_aurescens:0.14633483,Arthrobacter_chlorophenolicus:0.10166285):0.08794304):0.14043482); [! TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr72355] END;