LOCUS       NZ_AP027840             3452 bp    DNA     circular CON 04-APR-2024
DEFINITION  Escherichia coli strain 2017.17.03CC plasmid p2017.17.03CC_11,
            complete sequence.
ACCESSION   NZ_AP027840
VERSION     NZ_AP027840.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00562605
            Assembly: GCF_036505855.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Hoang,H.T.T., Yamamoto,M., Calvopina,M., Bastidas-Caldes,C.,
            Khong,D.T., Nguyen,T.N. and Yamamoto,Y.
  TITLE     Comparative genome analysis of colistin-resistant Escherichia coli
            strains possessing mcr isolated in Ecuador and Vietnam
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3452)
  AUTHORS   Yamamoto,Y. and Hoang,H.T.T.
  TITLE     Direct Submission
  JOURNAL   Submitted (22-MAR-2023) Contact:Yoshimasa Yamamoto The United
            Graduate School of Drug Discovery and Medical Information Sciences,
            Gifu University; Yanagido 1-1, Gifu 501-1194, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Coverage                   :: 115x
            Sequencing Technology :: MGI DNBSEQ-G400RS; ONT MinION Mk1c
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_036505855.1-RS_2024_04_04
            Annotation Date                   :: 04/04/2024 00:46:01
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,606
            CDSs (total)                      :: 5,482
            Genes (coding)                    :: 5,110
            CDSs (with protein)               :: 5,110
            Genes (RNA)                       :: 124
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 93
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 372
            CDSs (without protein)            :: 372
            Pseudo Genes (ambiguous residues) :: 0 of 372
            Pseudo Genes (frameshifted)       :: 109 of 372
            Pseudo Genes (incomplete)         :: 271 of 372
            Pseudo Genes (internal stop)      :: 48 of 372
            Pseudo Genes (multiple problems)  :: 54 of 372
            Pseudo Genes (short protein)      :: 4 of 372
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP027840.1.
            Annotated by DFAST https://dfast.ddbj.nig.ac.jp/
            The annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (PGAP). Information about PGAP can be found here:
            https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..3452
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="2017.17.03CC"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p2017.17.03CC_11"
                     /geo_loc_name="Viet Nam:Thai Binh"
                     /collection_date="2017"
     gene            complement(659..1243)
                     /gene="mphR(A)"
                     /locus_tag="AABK32_RS27980"
                     /old_locus_tag="VEE61_54300"
     CDS             complement(659..1243)
                     /gene="mphR(A)"
                     /locus_tag="AABK32_RS27980"
                     /old_locus_tag="VEE61_54300"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001137892.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="macrolide-binding transcriptional repressor
                     MphR(A)"
                     /protein_id="WP_001137892.1"
                     /translation="MPRPKLKSDDEVLEAATVVLKRCGPIEFTLSGVAKEVGLSRAALI
                     QRFTNRDTLLVRMMERGVEQVRHYLNAIPIGAGPQGLWEFLQVLVRSMNTRNDFSVNYL
                     ISWYELQVPELRTLAIQRNRAVVEGIRKRLPPGAPAAAELLLHSVIAGATMQWAVDPDG
                     ELADHVLAQIAAILCLMFPEHDDFQLLQAHA"
                     /name="mphR(A)"
     gene            complement(1243..2481)
                     /gene="mrx(A)"
                     /locus_tag="AABK32_RS27985"
                     /old_locus_tag="VEE61_54310"
                     /gene_synonym="mrx"
     CDS             complement(1243..2481)
                     /gene="mrx(A)"
                     /locus_tag="AABK32_RS27985"
                     /old_locus_tag="VEE61_54310"
                     /gene_synonym="mrx"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000004159.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="macrolide resistance MFS transporter Mrx(A)"
                     /protein_id="WP_000004159.1"
                     /translation="MSERRYSPLATLFAATFLFRIGNAVAALALPWFVLSHTKSAAWAG
                     ATAASSVIATIIGAWVGGGLVDRFGRAPVALISGVVGGVAMASIPLLDAVGALSNTGLI
                     ACVVLGAAFDAPGMAAQDSELPKLGHVAGLSVERVSSLKAVIGNVAILGGPALGGAAIG
                     LLGAAPTLGLTAFCSVLAGLLGAWVLPARAARTMTTTATLSMRAGVAFLWSEPLLRPLF
                     GIVMIFVGIVGANGSVIMPALFVDAGRQVAELGLFSSMMGAGGLLGIAIHASVGARISA
                     QNWLAVAFCGSAVGSLLLSQLPGVPVLMLLGALVGLLTGSVSPILNAAIYNRTPPELLG
                     RVLGTVSAVMLSASPMVMLAAGAFVDLAGPLPGLVVSAVFAGLVALLSLRLQFATMAAA
                     ATASAPTHTEGEH"
                     /name="mrx(A)"
     gene            complement(2478..3383)
                     /locus_tag="AABK32_RS27990"
                     /old_locus_tag="VEE61_54320"
     CDS             complement(2478..3383)
                     /locus_tag="AABK32_RS27990"
                     /old_locus_tag="VEE61_54320"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000219391.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Mph(A) family macrolide 2'-phosphotransferase"
                     /protein_id="WP_000219391.1"
                     /translation="MTVVTTADTSQLYALAARHGLKLHGPLTVNELGLDYRIVIATVDD
                     GRRWVLRIPRRAEVSAKVEPEARVLAMLKNRLPFAVPDWRVANAELVAYPMLEDSTAMV
                     IQPGSSTPDWVVPQDSEVFAESFATALAALHAVPISAAVDAGMLIRTPTQARQKVADDV
                     DRVRREFVVNDKRLHRWQRWLDDDSSWPDFSVVVHGDLYVGHVLIDNTERVSGMIDWSE
                     ARVDDPAIDMAAHLMVFGEEGLAKLLLTYEAAGGRVWPRLAHHIAERLAFGAVTYALFA
                     LDSGNEEYLAAAKAQLAAAE"
                     /name="Mph(A) family macrolide 2'-phosphotransferase"
     ARG             complement(2482..3383)
                     /name="mph(A)"
                     /gene="mph(A)"
                     /gene_name="Mph(A) family macrolide 2'-phosphotransferase"
                     /tool="amrfinderplus"
                     /drug_class="MACROLIDE"
                     /identity="100.0"
                     /coverage="100.0"
     ARG             complement(2479..3383)
                     /name="mphA"
                     /gene="mphA"
                     /gene_name="macrolide phosphotransferase (MPH)"
                     /tool="rgi"
                     /drug_class="macrolide antibiotic"
                     /identity="100.0"
                     /coverage="100.0"
     ARG             complement(1244..2481)
                     /name="Mrx"
                     /gene="Mrx"
                     /gene_name="macrolide phosphotransferase (MPH)"
                     /tool="rgi"
                     /drug_class="macrolide antibiotic"
                     /identity="100.0"
                     /coverage="100.0"
ORIGIN
        1 attcgaagtc atgcgagccc tgcgcaaagg acaggctcgc ccctggtgcc tgcagcccgg
       61 catcaggggc gaggtgcgcc ttgtggagag agcttttggc attgggccct cggcgctgac
      121 ggaggccatg ggcatgctca accaccattt cgcagcagcc gcctgatcgg cgcagagcga
      181 cagcctacct ctgactgccg ccaatctttg caacagagcc cgccgtgcta gtctgctcgg
      241 tgatggtgga gtgaagccaa cccgcaatcg ggttatgaat ctgcatcgcg attcgcaatc
      301 agctgtctct tgagcatgtc gaactcctgc gatgttatct cgccgtgctc gtgctgctac
      361 accaacttgt ccaactcatc cgccacaccg ctccccacca cctgcgatgg ccaggttgtt
      421 tgctgggcgc attggcggag tatcgtctcg acccgggaca cccacaccgg cacaacctta
      481 cgggagtgat tcactgtcaa agaatcggcc cggtgctctg acgcaagtat cgggatggtc
      541 accatttgta agccgtagac ctgagtggtg atcaagactt cgataccacc gaccgtaccg
      601 gtactaatcg acgacggtcg tgttcgtcgc ctgccgcagg gactctgcac acctccgttt
      661 acgcatgtgc ctggaggagt tggaaatcgt cgtgttcggg aaacattaaa cacaggatgg
      721 cagcgatctg agccagcaca tgatcagcta gctcaccatc cggatcgacg gcccactgca
      781 tcgtcgcgcc agcgatgacc gagtgcagga gcaactcagc tgccgcagga gcacctgggg
      841 gcagtcgctt gcggatcccc tccaccaccg cgcggttccg ctggatcgca agcgtgcgta
      901 gctccggcac ctggagctcg taccaggaga tgagatagtt caccgagaag tcgttgcgag
      961 tgttcatgct ccgaacgagc acctgcaaaa attcccagag cccttgcggc cctgcgccta
     1021 tcggtatcgc attcaggtaa tgccgcacct gctcgacgcc gcgctccatc atcctcacca
     1081 gcagcgtatc gcggttggtg aagcgctgga ttaacgctgc gcgggagagc cccacctcct
     1141 ttgctactcc gctgagcgtg aactctatgg gaccgcaacg cttcagcact acggtggcgg
     1201 cctcgagtac ctcgtcatcg gacttgagct tggggcgggg catcagtgtt caccttctgt
     1261 atgggttggg gcggaggctg tggctgccgc cgccattgta gcaaattgaa gacggagcga
     1321 gagtagagcc acgagccccg caaacacggc cgatacaacg aggccaggga gcggaccagc
     1381 aaggtcgaca aacgcgccgg ccgcaagcat aaccatgggc gaggctgaca gcatcaccgc
     1441 cgagaccgtg ccgagtaccc ggccgagaag ttctggcggc gtgcggttgt agatggcagc
     1501 gttgagaatg ggagagactg agccggtcag cagtcccacg agcgcgccca acaacatcag
     1561 caccggcacg cctggcaact gtgaaagcag aagcgagccc accgcagagc cacaaaatgc
     1621 caccgccagc cagttctgcg ctgatatccg ggcgccgacc gacgcatgaa tggcaatgcc
     1681 aaggagacca ccagccccca tcattgagga gaacagcccg agctctgcta cttggcgtcc
     1741 tgcatctaca aacagcgcag gcatgatgac gctgccgttg gcgccaacga tgcccacgaa
     1801 gatcatcact ataccaaaga gagggcgcag caggggttcg ctccagagaa aagcgacgcc
     1861 ggcgcgcatg gagagagtcg ccgtcgtggt catcgtccga gcggcacgcg cgggaagcac
     1921 ccacgcgccg agcagacctg caaggacgga gcagaacgcc gtcagcccga gcgttggcgc
     1981 agcgccaagc aggccgattg cggccccccc aagggccggg ccacctagaa tcgcgacgtt
     2041 cccgatcacc gctttcagtg acgagacgcg ctcaacggag agcccggcga cgtggccgag
     2101 tttgggcagc tcactgtcct gcgcggccat accgggtgcg tcgaacgcgg caccgagcac
     2161 cacgcaagcg atcagcccag tgttcgagag ggcgccaacg gcatcgagca gtgggatgct
     2221 cgccatggcc acgccgccca ccacacccga gatcaatgcg acgggcgcgc gcccgaaccg
     2281 atcgacgagg ccaccaccaa cccacgcgcc gatgatggtc gcgatgacgc tgctagcggc
     2341 cgtggcgccc gcccaggccg cgctctttgt atgagacagg acgaaccatg gaagcgcgag
     2401 ggccgccacc gcgttgccga tccggaagag aaaggtcgcc gcgaacagcg tcgcgagcgg
     2461 gctatatcga cgttcgctca ttccgctgcg gcgagctgcg ccttcgccgc agcgaggtac
     2521 tcttcgttac ccgagtcgag ggcgaagagt gcgtaggtga ccgccccgaa cgcaaggcgc
     2581 tccgcgatgt ggtgggcgag ccgcggccac acccggccac cggccgcttc atacgtgagg
     2641 aggagcttcg cgagcccctc ttcaccaaag accataaggt gcgcggccat gtcgatggca
     2701 gggtcatcaa cgcgggcctc gctccagtcg atcatcccgc tgacgcgctc cgtgttgtcg
     2761 atgagcacat ggcccacgta gagatcgcca tgcaccacca cggagaaatc tggccacgac
     2821 gaatcgtcgt cgagccagcg ctgccaccgg tggaggcgct tgtcgttcac cacgaactcg
     2881 cgtcggacgc ggtcaacgtc gtcggccacc ttctgacggg cctgcgtcgg tgtacggatg
     2941 agcatccccg catccacggc ggcggaaatg gggacggcat gcagggcggc gagcgcggtc
     3001 gcgaagctct ccgcgaagac ctccgagtcc tgcggcacga cccagtcggg cgtggacgaa
     3061 ccaggctgga tgaccatcgc agtcgagtct tcgagcatgg gataggcaac gagctcggcg
     3121 ttggccacgc gccagtccgg caccgcgaac ggcaggcgat tcttgagcat tgccagcacc
     3181 cgcgcctctg gttcgacctt cgcgcttacc tcggctcggc gcgggatgcg cagcacccac
     3241 cgacgtccat cgtcgacggt ggcgatcacg atcctatagt cgagcccaag ctcattgaca
     3301 gtcagcgggc catggagctt gagcccatgt cgggctgcaa gtgcgtacag ttgggaggta
     3361 tcggcggtcg tgactacggt catgattcac tcctgagggc ttgacgggtt tagccaccta
     3421 aatataacag tcacgtcggt tatattcaat cc
//
