LOCUS       NZ_AP027535             1573 bp    DNA     circular CON 04-APR-2024
DEFINITION  Escherichia coli strain LR-45 plasmid pLR-45_3, complete sequence.
ACCESSION   NZ_AP027535
VERSION     NZ_AP027535.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00562509
            Assembly: GCF_036496485.1
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  JOURNAL   Unpublished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 1573)
  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                   :: 185x
            Sequencing Technology :: MGI DNBSEQ-G400RS; ONT MinION Mk1c
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_036496485.1-RS_2024_04_04
            Annotation Date                   :: 04/04/2024 00:17:34
            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)                     :: 4,739
            CDSs (total)                      :: 4,620
            Genes (coding)                    :: 4,419
            CDSs (with protein)               :: 4,419
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 201
            CDSs (without protein)            :: 201
            Pseudo Genes (ambiguous residues) :: 0 of 201
            Pseudo Genes (frameshifted)       :: 59 of 201
            Pseudo Genes (incomplete)         :: 125 of 201
            Pseudo Genes (internal stop)      :: 44 of 201
            Pseudo Genes (multiple problems)  :: 29 of 201
            Pseudo Genes (short protein)      :: 4 of 201
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP027535.1.
            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..1573
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="LR-45"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pLR-45_3"
                     /geo_loc_name="Ecuador:Santo Domingo"
                     /collection_date="2019"
     gene            complement(667..1143)
                     /locus_tag="AABJ66_RS23685"
                     /old_locus_tag="VEE10_45190"
     CDS             complement(667..1143)
                     /locus_tag="AABJ66_RS23685"
                     /old_locus_tag="VEE10_45190"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000469298.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_000469298.1"
                     /translation="MFIDSEKRLKQLSDEAKKNTEDLEEAKKNSRFTQVSPKGWERVRE
                     LLKDSQGISALKLYSFLAEHIDPTCGAVVADQQFLAEKLGVSRSTIIRWLNYLESKNAL
                     VRIPVAGKVCAYALDPHEVWKGYNTTKNHAAFVTKTLVNKDGDIQRRIMAMFSN"
                     /name="helix-turn-helix domain-containing protein"
     Typing          1223..1331
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.95e-50"
     Typing          177..437
                     /name="Col(MG828)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.13"
                     /coverage="100.0"
                     /evalue="1.84e-104"
ORIGIN
        1 atgtgcaaat gtaataccgt cacccgcgac gatattccgt ttgccatctg gtcagggctt
       61 cgccccgaca ccccgtatca gtgcgtacgt gctcaatgtg gtttccggtt ctcttccgct
      121 tcctcgccca ctcgctcact aacgttcggt cgctggggct gcggcgagcg gtgccacctc
      181 tcgcatgttg tcggtgattc cgctgttgtt ctttcgggga tgagtcgtca gatagccctt
      241 caaacgcgct cagaagctct cagacgcacg aggcggggtt taaatgcccg tcagggcatg
      301 gaaggcgcga aaaacgctta cagagcgttt caggaggtca ggcgcgccga tacccctagc
      361 caggggcttt caggtcgcca ggaaccgcgc cagccctctg caaagcccat ttgcacggta
      421 caggcagtca ctcggttggt aggtggtcgt agaccgtcgg tgttacagcg atgggggtct
      481 ggggttctcc ccagacggtt tccggttgcg ctcaaggcgc tgccggaacc gtggcggctc
      541 ggtcgttctg gagatcgggg agcaaaaaca cgcaagggat tttgaggcgg caaaagagca
      601 atgcaggata gacaatcatg gtcagaacgt taacacgtag cccctgattg tccgcctgcc
      661 gctggctcaa tttgaaaaca tggccatgat tcggcgctga atatcaccgt ctttgttgac
      721 cagtgtttta gtgacaaatg ctgcatggtt tttcgtagtg ttgtatccct tccagacttc
      781 atgtggatcg agggcatacg cacaaacctt accagcaacg gggattctaa ctaatgcatt
      841 ttttgactct aagtaattga gccaacgaat aattgtgctt ctgctaactc caagtttttc
      901 agctaggaat tgctgatccg caacgacagc gccacacgta ggatcgatat gctccgctaa
      961 aaatgagtac agcttcagtg ctgatatgcc ttggctatcc ttcagcagct ctcgaacgcg
     1021 ttcccaacct tttggggata cctgtgtaaa ccttgaattc ttctttgctt cttcgagatc
     1081 ctcggtgttt ttctttgcct catctgaaag ttgtttcagt cgtttttctg aatcaataaa
     1141 catgattttt tccctctaaa aatcccatgc actaacgttg gttcaaatct aagccatcat
     1201 gacacatctg tgcaacacct tgttgcgtgt tgtcgcatcc aggatgcgac aacgttgtgt
     1261 caccctggat gcgacaggta aacaaaaaac acactaaaaa aacaacaact tacaaatcgg
     1321 cgtaaaagat ctattctagg caagggtgtt gcgtgcaacg caacgccctt tgggggtgtc
     1381 ggggcgaagc cctgacccag tcacgtagcg atagcggagt gtatactggc ttactcctct
     1441 gcaagcctcg cttactcctc tgcaagcctc gccagccgtg atttttgcca gatttcgtgg
     1501 ttttcacgtt caacagctcc tgcacgtttt ttgccgtccg ttcaccgtta acccccgcag
     1561 aaatcgggac agg
//
