MMSYN1 0034 jelange

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Author Information

Josh Lange | jelange

Basic Information

  • ID: MMSYN1_0034
  • Name: efflux ABC transporter (tolC)
  • Organism: JCVI-Syn3.0
  • UniProt ID: [1]
  • DNA sequence:

ATG CTG AAA CAA GGG GTT AAA TGG ATT TTG AAG TTC AAG TTG CAG TTG ATC GTT ATC GTG GTG CTG ACC TTC ATT GCT TCG TCT ATC TTA ACT ATT TCT TTC ACT ACC AAC AAA CGT TTG TCA TCG GCA TAC GAT CAA GTC GTG AAT AAC CAG AAG AGT CCT AAA TTC GAT AGC ACG TAC CAG ATC ACC GTA GGC AGT AAA GCA AAA CCG GAA AAG GGG GAC CCA CTT TTC ATT CCC ATC TTT GAT TTT GTT GAC AAG CAA TAT ACA GGG TTC AAA GAC GAG GGA TAC GAT AAT TTC AAC TTG GCG TTT AAC GAT ATC TAT AAG AAT AAA GAT TTG CTG ACT ATC ACC ACG AGT TCC CAG GAA TTC AAG GAT GCG TGG GCT AAA AAA AAG GAG GTA TTC GAA TAC AAA GAG AAT TTA GAT GAC ATC AAG CAA TTG TCG AAG GAA CAG GAG CAG TTC GAC TTT GCC ATT AAC GAC GTG TTC TTC AAC ACG ATG GCC GAA CTT CTT TCT AAA AAC GAC CCG GCT ATC AAA AAT ACC GTT ATC GGC CGT TAC ACA TTG AGC AAC CCA AAT TGG TAT AAA CAC TTC TAT GAT AAA GAA AAA AAC ATT AAA TCG AAC TGG TCT GAA TTC ATT AAA GAC AAA CAG AAA ATC GAG AAC TTG AAA AAA TCG AAC CCC GAT GAT CTT AAG ACT TAC TTC TAC TCA TAC TAT GCC TTT GAG TCT TTA TCC CAA TAT TTT TTC AAA ACA ATC CAA ACA TTT CTG CAA AAC AAG GAT AGC GAA CTG GCT CAA CAA TCT AAC AAT AAC AAA AAC GAA GCA CAC AAA TAC TTT TAT GAG TTT CTG TTT GGG AAA TAT TTT GAC AAC AAT AAG GCG AGC TAC AAA GAG GAT TAC ATC GCT AAC AAT AAC AAC CTG TAC ACC CTT ACG TTC GAT AGT ACA GTT AGC AGC TCG GAA TTC GAA AAG ATG AAT TTT TTG ATC TCG TCA GAA AAT AAA GAG CAG AAC AGT CAG GAC CAA AAT TTC TTT AAC GAA TTA GTG AAA AAA GGA TTC AAA GGA ATC TTA CGT CCG CTG CAG ATT ACT TAT CAG AAT TTC GGA GAC CAG GTG GAC ATC AAG AAT GTT GTA CAA TAC AGT GAA ACG CAG GAA TTG CGT GGA TTC GTA AGC AAT TCT AAC ATT TAT TCG CAG AAC GTT AAG GAG CTT CCA GAG ATT TTC AAA AAT AAT TCG TTT GTC GAC ATC TTG GCA ATG AAT GCA GAC CCG TTC GCA AAT ATC GGT GAA AAA TCC GTG AAC TTT TAT ACG TCC AAG ACA AAC GAC CTT GAA ACT ACC GTC GCT AGC GAT TTC CCA ATT ACC GCC GCA TTT TTA ACA CAT CAC AAG CTG ACC GCT CTT GCA AAT GGG TAT GAT TTG TAT ATC CGT CCA GAG ACG ATT TTC AAC GAC CCC ATT ACA AAA AAG ACC TTC CGT ATC GTG GAT ATC ACA AAT AAG GAC TTC ACA AAT TAC ATT ATT CTT GAT GGA CAA ACG CCC AGC AGC GCG TCG GAG ATT ACA ATC TCA AAA CAG TTC GCG AAA GCG AAC AAA ATC CAG ATT GGG GAC CGT TTG ACC TTA GGT AAT GCG AAG GGG CTT ATC GTG ACT GGG TAC GCT GTC GAT ACT TAC TCA TTT TTT CCC ACT AGC GAC CCA AAT GTA CCA CTG CCC AAA AGC GAC TCG GGT GGG CTG ATC TAC GCA GAC TTT GCT ACG ATT AAC CAA ATT TTG GGA GAC GGA AAT TCG GCG ACA GGT AAT GAC CAG ACA TCA ACG TTT AAT TTC TTT TTG ATT AAG AAG AAC AAT TCA CTT AAT ATC AAG AAT GTT TTT TTC GAC CAC TTT AGT GTG GCC AAC CGT ATT CGC GAT AAT ATC CTG GCA AAG CAA AAA GGG ACA GAG ATC CAA ACT TTC TAC CAG GAA TAT GAG TTT AGC AAT TCC TGG TAC AGC CTT AAT TGG ACT TTA TAT CAA AAA ATC GCA TTC TGG TAC TCT TTA GCA ACC TTC CTT ACA GCC TCT TTG ATC GCA TTA GTC TCC GCG CTT GCT GTC TTC GTC GGG GTC ATC AAA TCA ATC CAG GCA AAT TCC AAG CAG ATT GGC ATC TTA AAG GCT AAC GGG GCA TCG TCC GCC ACA ATC TCA TGG TCC TAT GTA TCC TAT GCG GTA ATC CTT GTA TTC ATT GCA ATC CCA TTG GGC TGG ATG GCA GGT ACT ATG CTT CAG GTG CCG TTC GTA GCC ATT TTT AAA GAC TAC TTC AGC TTC AAG ACC AAC GTA TTG ATT TAT GAT TGG TTG GCA CCT CTG ATT TCT ATC ATT ATT TTT GGC GTC CTG ATT GGC GTA TTC TCA TTT CTT GTA GCC CTT TTC CAT ATC AAA AAA CCT GTG CTT GAT ATT ATC AAA AGC AGT AAA AAA TGG TCA AAA CCG AAG ATT ACG GAC TGG CTG CAT AAG CGT ATT TTT AAA AAA CCA CGT TTT GCA ACT TTG CTG ATG TTA AAG TTG ACG GAG AGC GGT AAA AAA CCT TTT AGT CTG TTA TTA GTA CTG GTG TTT GTT GGC ACC CTT TTC GTT AGC GCC GGG GTG GCC ATT CCC TCG GTG ACG AAA TAC GCC AAA GAT AAT TAC TTT AAA AAG GTA AAC TAT GAT AAC CAG TAT GAG ATC TAT AAC TCC CTT TCT AAT TCT CCA CTG GGG AAA GAC GTT TTT AAC TTT TGG AAT GGC CAC GAG CAA ATC GAC AAT ACT TAC AAA GAG GTA AAA GAC CCG TCA GGC ACC ATT AAT TAC TAT GAA GAT CCT AAT TCC TAT ACG CTT TCG AAC CAG AAT TCG AGT GTG TTA CCA CAG CTT ATT TAC AAG ATC AAC ACA AAT AAA AAT AAC GAT TCC AAC AAC GCG GAG ATC CTG ACC CCA TAC AAA TCC ATC ATC AAG GAA TAT TTG AAA ACT GGT GTA TCC AAC CTG TAC AAA AAC CTT CTG GAC TGG GCT TCG TAT CAG ATC AGC ATC TCT AAC GGA AAG TCG ATT AGC ATC GGT ACT ATC GAA CAA CTT TAC GCA TAC ATT TTG AAT GAC GCC GAT CTG AAT GAA CGT TTT AAA AAC GAC ATT GAT AAG GTT AAA GAG ACG AAT AAC GTG ACT CAA CCT CTG ACT CAA TTC GTG GGA GAA CTT CTG AAA ACC ATT TTT AAA GAC AAA GTC CAA ACT ACA GGC GAA TGG AAA GAA AAA ATC TTG AAC TTA ATC CTG GGA TAC AGC CCG TCG TTC ATC AAG AGC TAC CTG ACA AGT GAA TCT CGT CGC GCA CAA TTT AGC TTC GGT TGG CAG AAG CAG ACA ATT ATC CCT CAA AAA GAC CAA TTG GCG ACA ATC TTC AAA CCC AAG TCG AAC AAC ATC GAA ACT AAT TAT TCC ATC CTT GGC TTG GAT AAA AAT CAA CAG ACC TAC AAA TTA TCG GAC AAG CAG AAA AAC CAG TTG TTC CTT AGC AAT AAC CAA GTA CAG AAA CTG TAT CAA ATT ATT AAC AAT CCG TAT GAT AAA AAC CAG AAC GAT GAC ATC TAC TTG AAT AAT ATC AAA GTA TAT GAC CAC AAG ACA AAC ACG CTT ACG ATT CCC ACG ATC GTG AAC AAA AAT CTG AAT TAT AAA TTA AAT AAG TTC GGC GAT AAT ATT ATT TCA AAC TTG TCT GCG AAC AAT ATC CAG TTA AGT TAT AAG ACC CGC AAT AAC GAC TTC AAC GTA TTG CCG AAA CAA GCT TGG ATT TAT GAC GAC TCT GAC TAT CTT AAG ACA GAG TAC GTA AAT AAA CAT ACG AAG TGG GAG GAT CAA CCC ATT CAA ATC ATC AAC AAT AAA AAT AAC TCA AGC TCA TAC GGA TAC GAG GTT GTA GAA AAC GAT AAC GAG AAA TAC TAC TAC CTT AAC CCA TAT AAT TTA GAT GTC AAT AAG TTT ACT CAG CGC CAG GTC ATT GAC ATT TGG TCA AAT AAT AGT AAT TCC TCG TTG GTA GCT AAG CAA CAT GAG AAT ATT GTC GAT GAA TCG CCG CTT TTC GGC GAT TTT GTT ATT AAT AAT AAT GGT CAG ATC ACC AAA TCG TTT ATT CGC CCG TAC TAC CAA CTG CGC AAC CTG TTG CTT TTC GTG CCA ATT ACC AAT CAA GTA TCG TGG GAG GAT TTC GCG TTA TAT GCC TCC GGG TGG AGC GAG TCT GCG GAA CAT GGT CTT GAC ATT AAA CGC GTC ATC TCT GAC TTG GAT AAA ACT GAT GAT CAC ACA CGC AAT TAC AAG TAC CCA GCA ATT AAA AAA CTT AAC GCG AGT CTT GTC CCT CAA AGC GTG AAA AAC GGT TGG CAG TCT GTA ATT AAG GAT CTT AAG TCC GAC ACT GCG TAT TTG GCG ATT CGC CCC TAC GAT TTT AGT ATT CAG CAA GAG AAA TGG GCC AAT AAT CAT TAC GAA TAT TTC ATC TTG GAC AAC TCA ACA AAA AAA ATC TTG GGT GTC AAT CCA CCC TCA GCA GAT AAG TCC ATT CCA AAC ATC TTG TTA AAT TCA GTT CCA CAC TTT TAC CGC CGT GCA GTT GGA AAG CGC AAA AGC ATT CCC GCC ATC CTT AAG TTG CAG GAT AAA AAC GTG AGT TAT GTT AAT AAG GAT TTA AAG ATC AAA CTT CAA AAG GTT GAC GAT ATT GAT ATT TAT GGA AAA GCG TAT GCC TTG GTT GAC TCT GAT CTG GCG AAT ATG TTG TAT GGC TTT GAC ATC TCT CGC AGC ACC AAT TAT GAT TAT CGT CCT TTC GAT ACC TCC AAG ATT ATT AAG AAA GGG GAG TTA TTT AAT ACC TAC AAA ACG ACA AAT TGG CTT AAA GTC AAT AAC AAA GAT CCT TGG AAG CAA GCG TTT ATC TCT CAG AAG GAC ACG TTT TCG TAT TCC CCC CAT TAT TAC TAC AAC ACG ATC TTC AGC AAC AGC AGC GAA CCG TTA ATT ATC ACT TCG TCG GTA TCG TTG ATT TCG GAG CAG CGT TTA GGT ATC GCA ATT CTT GAT CTG ATG AAC CTG TCC GAT TAT AAA GCG GGA ATC GTA GAC GTT GAT TTT ACA TTC GAG ACA AAA CAA TTG TTG AAT CAG ATC GCC AAG ACT GCC ATC TAT ATC GCC ATT ATC ATT ATT ACC GCA ATT ATG TTA TGT GCA TCA TTA CTT ATC ATG CTT ATC ACA GAT ATT TAC ATC AGT CAA TAT AAG AGC TTC ATG ATC ATG CTT CGC TCC ATG GGT TAC ACT AAC ACT CAA GTG ATG TTT TAC ACT TTA GGG ATC GCA ACG ATC TTC TCT TTG CTG ATC TCT TTC ATC ACC ACC ATT ATC GTG TTC AGC AGC ACG TCA ATT ATC GAC AAG GTC TTC TCT GCA AAT GGA TTT TCG ATC CCA ATT AAT GTT TAT TGG GTC TCT GTA GTC TTC TGT ATC CTT CTG ATC CTG GTT TCA TTC TTT ACG TCA CTG TGG GTT AGT ACG AAA CGT GTG CGC AAT GCG GAG CCA TCA ACG ATG TTG TCT GAG GTT GAT GAG TAA TAA

  • Amino Acid length: 1,789 amino acids.
  • Amino Acid sequence:

MLKQGVKWILKFKLQLIVIVVLTFIASSILTISFTTNKRLSSAYDQVVNNQKSPKFDSTYQITVGSKAKPEKGDPLFIPIFDFVDKQYTGFKDEGYDNFNLAFNDIYKNKDLLTITTSSQEFKDAWAKKKEVFEYKENLDDIKQLSKEQEQFDFAINDVFFNTMAELLSKNDPAIKNTVIGRYTLSNPNWYKHFYDKEKNIKSNWSEFIKDKQKIENLKKSNPDDLKTYFYSYYAFESLSQYFFKTIQTFLQNKDSELAQQSNNNKNEAHKYFYEFLFGKYFDNNKASYKEDYIANNNNLYTLTFDSTVSSSEFEKMNFLISSENKEQNSQDQNFFNELVKKGFKGILRPLQITYQNFGDQVDIKNVVQYSETQELRGFVSNSNIYSQNVKELPEIFKNNSFVDILAMNADPFANIGEKSVNFYTSKTNDLETTVASDFPITAAFLTHHKLTALANGYDLYIRPETIFNDPITKKTFRIVDITNKDFTNYIILDGQTPSSASEITISKQFAKANKIQIGDRLTLGNAKGLIVTGYAVDTYSFFPTSDPNVPLPKSDSGGLIYADFATINQILGDGNSATGNDQTSTFNFFLIKKNNSLNIKNVFFDHFSVANRIRDNILAKQKGTEIQTFYQEYEFSNSWYSLNWTLYQKIAFWYSLATFLTASLIALVSALAVFVGVIKSIQANSKQIGILKANGASSATISWSYVSYAVILVFIAIPLGWMAGTMLQVPFVAIFKDYFSFKTNVLIYDWLAPLISIIIFGVLIGVFSFLVALFHIKKPVLDIIKSSKKWSKPKITDWLHKRIFKKPRFATLLMLKLTESGKKPFSLLLVLVFVGTLFVSAGVAIPSVTKYAKDNYFKKVNYDNQYEIYNSLSNSPLGKDVFNFWNGHEQIDNTYKEVKDPSGTINYYEDPNSYTLSNQNSSVLPQLIYKINTNKNNDSNNAEILTPYKSIIKEYLKTGVSNLYKNLLDWASYQISISNGKSISIGTIEQLYAYILNDADLNERFKNDIDKVKETNNVTQPLTQFVGELLKTIFKDKVQTTGEWKEKILNLILGYSPSFIKSYLTSESRRAQFSFGWQKQTIIPQKDQLATIFKPKSNNIETNYSILGLDKNQQTYKLSDKQKNQLFLSNNQVQKLYQIINNPYDKNQNDDIYLNNIKVYDHKTNTLTIPTIVNKNLNYKLNKFGDNIISNLSANNIQLSYKTRNNDFNVLPKQAWIYDDSDYLKTEYVNKHTKWEDQPIQIINNKNNSSSYGYEVVENDNEKYYYLNPYNLDVNKFTQRQVIDIWSNNSNSSLVAKQHENIVDESPLFGDFVINNNGQITKSFIRPYYQLRNLLLFVPITNQVSWEDFALYASGWSESAEHGLDIKRVISDLDKTDDHTRNYKYPAIKKLNASLVPQSVKNGWQSVIKDLKSDTAYLAIRPYDFSIQQEKWANNHYEYFILDNSTKKILGVNPPSADKSIPNILLNSVPHFYRRAVGKRKSIPAILKLQDKNVSYVNKDLKIKLQKVDDIDIYGKAYALVDSDLANMLYGFDISRSTNYDYRPFDTSKIIKKGELFNTYKTTNWLKVNNKDPWKQAFISQKDTFSYSPHYYYNTIFSNSSEPLIITSSVSLISEQRLGIAILDLMNLSDYKAGIVDVDFTFETKQLLNQIAKTAIYIAIIIITAIMLCASLLIMLITDIYISQYKSFMIMLRSMGYTNTQVMFYTLGIATIFSLLISFITTIIVFSSTSIIDKVFSANGFSIPINVYWVSVVFCILLILVSFFTSLWVSTKRVRNAEPSTMLSEVDE

Function and Homologs

  • Product: permease protein
  • Module: Cell membrane
  • Closest homologous proteins: The top (max three) homologous proteins to this protein, as identified by BLAST searches.
    • Uncharacterized Protein, 9,177/0/98.9, [2]
    • Uncharacterized Protein, 9,164/0/98.6, [3]
    • FtsX-like permease family protein, 9,001/0/96.6, [4]

Expression

  • Expression Level: Medium.
  • Expression Level Hypothesis: Once a cell is born it can start to create waste, but of course for every cell part that is waste created by a cell there is a portion of that cell part that is not expelled as waste thus the cell expression level would be medium. Since this gene acts as a pump, the gene needs to be expressed, but once there are expressed proteins already pumping out toxins, the cell does not need to make more.
  • Expression Level References and Description: There was no match for tolC in the Mycoplasma genitalium excel sheet but the other ABC transporters/efflux proteins tended to be of the medium expression level. The E.coli equivalent expression level is high, so it is possible that this expression level should be high.
  • Expression Time: Early.
  • Expression Level Hypothesis: Of all the efflux proteins, the ABC family is the most important and necessary for a cell's survival. As soon as a cell begins to process ATP it needs a way to dispose of waste and the cell begins to process/synthesize ATP as soon as it is created, so this gene is expressed early.
  • Expression Time References and Description: [5]

Gene Context

  • Other Components: None (I believe)
  • Possible Dependencies: Various activators but none are in our wiki (e.g. marA) [6]. RNAP MMSYN1_0128 is necessary for synthesis of tolC.
  • Process: process is "Efflux" so I consider input to be what tolC brings into the cell and output what it ejects
    • Inputs: colicin E1
    • Outputs: AcrAB-TolC, AcrEF-TolC, EmrAB-TolC, MacAB-TolC
    • References: [7]

Construct

  • Synthesis Score: The synthesis score of your construct: 1, 2,3
  • Predicted Translation Rate: Prediction of construct translation rate from the RBS calculator
  • Design Notes and Details: For example, had to use a rare codon to fix folding energy;
  • GenBank File: A link to the GenBank file. file