#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 June 13, 2026; 14:45 GMT TreeBASE (cc) 1994-2008 Study reference: Wojtkowska M., Buczek D., Suzuki Y., Shabardina V., Makałowski W., & Kmita H. 2017. The emerging picture of the mitochondrial protein import complexes of Amoebozoa supergroup. BMC Genomics, . TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S21918] [ The following blocks are input data for analysis step 22084 ] BEGIN TAXA; TITLE TaxaForAnalysisStep22084; DIMENSIONS NTAX=17; TAXLABELS Acanthamoeba_castellanii_AcTim10A Acanthamoeba_castellanii_AcTim10B Acanthamoeba_castellanii_AcTim9A Acanthamoeba_castellanii_AcTim9B Acanthamoeba_castellanii_AcTim9C Acytostelium_subglobosum_AsXP012749540 Acytostelium_subglobosum_AsXP012751058 Dictyostelium_discoideum_DdTim10 Dictyostelium_discoideum_DdTim9 Dictyostelium_fasciculatum_DfTim10 Dictyostelium_fasciculatum_DfTim9 Dictyostelium_purpureum_DpTim10 Dictyostelium_purpureum_DpTim9 Polysphondylium_pallidum_PpTim10 Polysphondylium_pallidum_PpTim9 Saccharomyces_cerevisiae_ScTim10 Saccharomyces_cerevisiae_ScTim9 ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M44311] TITLE Amoebozoa_supergroup_Tim9_and_10; LINK TAXA = TaxaForAnalysisStep22084; DIMENSIONS NCHAR=134; 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 ] [ . . . . . . . . . . . . . ] Acanthamoeba_castellanii_AcTim10A --------------MSNEQYMTREQM----LASAQQELVAFQDMYNRMQHQCWKKCVLR-LGESELSVSEGLCADRCVKKYMEVHNRVGKVLQ----------GLQQQQPQPQ--------------------- Acanthamoeba_castellanii_AcTim10B -----------MNGQPMPSGMSEQERED--VLAASEFITIQMDLYNRVLGRCWDKCIAH-YWDKDLTVGEGSCVDRCVVKYMTVQRTVAKRVLG-------IRAWTKREEERQKVIQKLRDNQMFGV------- Acanthamoeba_castellanii_AcTim9A -----------MQRGR----MSKDDEASISQMMERMQMEDIITHYNRLADTCFTQCVGD-FKSNALLQNEEVCVRRCVEKFTQFSTRFQR-------------VFVDHQTAANKQRQ----------------- Acanthamoeba_castellanii_AcTim9B -----------MDIAP-DAKKSEAAARNMVQLMNEMQMKSVLGMFNSMSERCFRLCMKNVDDDAPITTKEDSCIKNCTEKWQRYSQRVQLIFAEENTRANTKADLMQDRPSSNLEGQD---------------- Acanthamoeba_castellanii_AcTim9C MGNRQFGMGYGMGAGQSRAGSASDEERMMQVMMASMQMQDYLTMYNSTTEKCFKKCVFN-LRTPQLVEKEEVCLNRCIEKMSHYNLRFQQKVGAE------SAALREQQQKEAEQKQQPPTEAAQADKEAPSSK Acytostelium_subglobosum_AsXP012749540 -----------------------MNE----VDAKLVEMKFYTNLFTSLQRICASKCISK-YNDSELTVGESVCAERCTEKWMETFKKVQAKLHN---APP-TTGMQAAAEPEPVAAKKGWF------------- Acytostelium_subglobosum_AsXP012751058 -------TISIIKMEK---KFSKKEEDRFMRQLNKMQMEEVMNTTFQITNHCFEACINN-FRIRKLDNDEELCVYKCIEKNERFAMVLTE-------------CFAKISQQDQ--------------------- Dictyostelium_discoideum_DdTim10 -----------------------MDD----VEMKVMEMKMISKMFQGILDACSAKCISK-YNEGDLNVGESVCAERCVQKWMETFKKVQSKMSGT----QPGQEVPQEAPAAAPEKKG-WF------------- Dictyostelium_discoideum_DdTim9 -------------MDR---RLSKKEEERIVNELNKLQMIEMVDTSVNLTNKCFQSCITN-FRIRKLDDEEQLCVYKCVEKNMFFTSALNN-------------HFMKLSNEGMF-------------------- Dictyostelium_fasciculatum_DfTim10 -----------------------MDD----FEARVIEIKFYANF---LQKACASKCVMK-YSDSELAVGESLCAERCTEKWMETFKKVHSKMNAG--AIAAASAAQQQEQAKPQ-QKKGWF------------- Dictyostelium_fasciculatum_DfTim9 --------------------MAKSDEEKLMLVMNKMQMKEAFKNVFMVTNQCFEACATN-FRLRKLDNDEELCIYKCIDKNEKFTMVLAN-------------HFAKVSQTEGFM------------------- Dictyostelium_purpureum_DpTim10 -----------------------MDD----IDVKILEMKMISKMFTGISEACSAKCISK-YSEGELNVGEAVCAERCAQKWMDTFKNVQSKIN-------PQNAVPATPAEPAEQKKSSWF------------- Dictyostelium_purpureum_DpTim9 -------------MER---KLSKKEEEKIVQELNKMQMLEMVDTSVNLTNKCFQACATN-FRIRTLDDDEQLCVYKCVEKNTNFLSAINS-------------HFVKLSGDA---------------------- Polysphondylium_pallidum_PpTim10 -----------------------MDD----IEARLIEMKFYTNMFSSLQRICTSKCISK-YSDSDLSVGESVCAERCTEKWVETFKKVQTKLQPGSGAPAGNTAVPAELPKQEQPVKKGWF------------- Polysphondylium_pallidum_PpTim9 -------------MSR---KLTKQEEERITHAINKMQMKEVINTTFQITNHCFEACINN-FRLRKLDNDEELCVYKCIEKNEKFAMVLAE-------------HFAKIEQQQ---------------------- Saccharomyces_cerevisiae_ScTim10 --------MSFLGFGGGQPQLSSQQK----IQAAEAELDLVTDMFNKLVNNCYKKCINTSYSEGELNKNESSCLDRCVAKYFETNVQVGENMQ----------KMGQSFNAAGKF------------------- Saccharomyces_cerevisiae_ScTim9 -----------------MDALNSKEQQEFQKVVEQKQMKDFMRLYSNLVERCFTDCVND-FTTSKLTNKEQTCIMKCSEKFLKHSERVGQ-------------RFQEQNAALGQGLGR---------------- ; END; [ The following blocks are output data for analysis step 22084 ] BEGIN TREES; TITLE Amoebozoa_supergroup_Tim9_and_10; LINK TAXA = TaxaForAnalysisStep22084; TREE Fig._3A = [&R] (((Acanthamoeba_castellanii_AcTim10B:0.6383817,(Acanthamoeba_castellanii_AcTim10A:0.47805698,Saccharomyces_cerevisiae_ScTim10:0.5225749):0.0606827):0.0672407,((Dictyostelium_discoideum_DdTim10:0.11945145,Dictyostelium_purpureum_DpTim10:0.22885524):0.17586777,(Dictyostelium_fasciculatum_DfTim10:0.24829934,(Polysphondylium_pallidum_PpTim10:0.19349187,Acytostelium_subglobosum_AsXP012749540:0.17586823):0.03764747):0.08936136):0.23362627):0.16550413,(Acanthamoeba_castellanii_AcTim9B:0.67747388,(Acanthamoeba_castellanii_AcTim9C:0.45872306,(Acanthamoeba_castellanii_AcTim9A:0.5176044,(Saccharomyces_cerevisiae_ScTim9:0.5523657,((Dictyostelium_discoideum_DdTim9:0.11492201,Dictyostelium_purpureum_DpTim9:0.15334198):0.16643352,(Dictyostelium_fasciculatum_DfTim9:0.2486081,(Polysphondylium_pallidum_PpTim9:0.07091648,Acytostelium_subglobosum_AsXP012751058:0.12323953):0.06814773):0.12258109):0.40836474):0.01369051):0.07674165):0.0604657):0.16550413); [! TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr109444] END;