LOCUS       NZ_AP027797             6078 bp    DNA     circular CON 04-APR-2024
DEFINITION  Escherichia coli strain 2017.06.05CC plasmid p2017.06.05CC_7,
            complete sequence.
ACCESSION   NZ_AP027797
VERSION     NZ_AP027797.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00562594
            Assembly: GCF_036504765.1
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  JOURNAL   Unpublished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 6078)
  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                   :: 183x
            Sequencing Technology :: MGI DNBSEQ-G400RS; ONT MinION Mk1c
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_036504765.1-RS_2024_04_04
            Annotation Date                   :: 04/04/2024 00:25:05
            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)                     :: 5,191
            CDSs (total)                      :: 5,071
            Genes (coding)                    :: 4,814
            CDSs (with protein)               :: 4,814
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 257
            CDSs (without protein)            :: 257
            Pseudo Genes (ambiguous residues) :: 0 of 257
            Pseudo Genes (frameshifted)       :: 73 of 257
            Pseudo Genes (incomplete)         :: 187 of 257
            Pseudo Genes (internal stop)      :: 44 of 257
            Pseudo Genes (multiple problems)  :: 45 of 257
            Pseudo Genes (short protein)      :: 2 of 257
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP027797.1.
            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..6078
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="2017.06.05CC"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p2017.06.05CC_7"
                     /geo_loc_name="Viet Nam:Thai Binh"
                     /collection_date="2017"
     gene            join(5417..6078,1..274)
                     /locus_tag="AABK28_RS25875"
     CDS             join(5417..6078,1..274)
                     /locus_tag="AABK28_RS25875"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011666805.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_001271369.1"
                     /translation="MSAALQYFEENLPLRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDLNAPAPNITIKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAIERALCEKLGADVNYSGLICKNPFHLEWQVMEWREEAYTLDELADYLDLSTSA
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLDAVIQRVEMYNASLPVPLSP
                     PECRAIGKSIAKYTHRNFTAETFAQYVADTHTPEIQAKRGRKGGIAKGEAYDDKRFMAL
                     CMLENGYSQKAIAAMLEVSTRTIRNWKSGK"
                     /name="replication initiation protein"
     gene            complement(468..866)
                     /locus_tag="AABK28_RS25880"
                     /old_locus_tag="VEE55_49270"
     CDS             complement(468..866)
                     /locus_tag="AABK28_RS25880"
                     /old_locus_tag="VEE55_49270"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001222916.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLLDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKEIKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            1043..1969
                     /locus_tag="AABK28_RS25885"
                     /old_locus_tag="VEE55_49280"
     CDS             1043..1969
                     /locus_tag="AABK28_RS25885"
                     /old_locus_tag="VEE55_49280"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_001314449.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTAEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQNRTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            1972..2505
                     /locus_tag="AABK28_RS25890"
                     /old_locus_tag="VEE55_49290"
     CDS             1972..2505
                     /locus_tag="AABK28_RS25890"
                     /old_locus_tag="VEE55_49290"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_094316166.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVAREILRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTMLDRNYNATAAVYQKVVTLED
                     KLAEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            2727..4454
                     /locus_tag="AABK28_RS25895"
                     /old_locus_tag="VEE55_49300"
     CDS             2727..4454
                     /locus_tag="AABK28_RS25895"
                     /old_locus_tag="VEE55_49300"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000012961.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin-like bacteriocin tRNase domain-containing
                     protein"
                     /protein_id="WP_338386286.1"
                     /translation="MSGGDGRDHNSGAHNTGGNINGGPTGLGGNGGASDGSGWSSENNP
                     WGGGSGSGVHWGGGSGHGNGGGNGNSGGGSNSSVAAVAFGFPALAAPGAGTLGIAVSGE
                     ALSAAIADIFAALKGPFKFSAWGIALYGILPSEIAKDDPKMMSKIVTSLPAETVTNVQV
                     STLPLDQATVSVTKRVTDVVKDTRQHIAVVAGVPMSVPVVNAKPTRTPGVFHASFPGVP
                     SLTVSTVKGLPVSTNLPRGITEDKGRTAVPAGFTFGGGSHEAVIRFPKESGQKPIYVSV
                     TDVLTPAQVKQRQDEENRLQQEWNDTHPVEVAERNYEQARAELDQANKDVARNQERQAK
                     AVQVYNSRKSELDAANKTLADAKAEIKQFERFAREPMAAGHRMWQMAGLKAQRAQTDVN
                     NKKAAFDAAAKDKSDADAALGAALERRKQKENKEKDSKDKLDKESKRNKPGKATGKGKP
                     VGDKWLDDAGKDSGAPIPDRIADKLRDKEFKSFDDFRKKFWEEVSKDPELSKQFKDSNK
                     TNIQKGKAPFARKKDQVGGRERFELHHDKPISQDGDVYDMDNIRVTTPKRHIDIHRGK"
                     /name="colicin-like bacteriocin tRNase domain-containing
                     protein"
     gene            4457..4717
                     /locus_tag="AABK28_RS25900"
                     /old_locus_tag="VEE55_49310"
     CDS             4457..4717
                     /locus_tag="AABK28_RS25900"
                     /old_locus_tag="VEE55_49310"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000412701.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="bacteriocin immunity protein"
                     /protein_id="WP_000420692.1"
                     /translation="MELKHSISDYTEAEFLEFVKKICRAEGATEEDDNKLVREFERLTE
                     HPDGSDLIYYPRDDREDSPEGIVKEIKEWRAANGKPGFKQG"
                     /name="bacteriocin immunity protein"
     gene            4779..4922
                     /locus_tag="AABK28_RS25905"
                     /old_locus_tag="VEE55_49320"
     CDS             4779..4922
                     /locus_tag="AABK28_RS25905"
                     /old_locus_tag="VEE55_49320"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000724569.1"
                     /GO_component="GO:0019867 - outer membrane [Evidence IEA]"
                     /GO_process="GO:0019835 - cytolysis [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin release lysis protein"
                     /protein_id="WP_001314446.1"
                     /translation="MKKITGIILLLLAVIILAACQANYIRDVQGGTVSPSSTAEVTGLA
                     TQ"
                     /name="colicin release lysis protein"
     BGC             1..6078
                     /name="RiPP-like"
                     /gene="RiPP-like"
                     /tool="antismash"
     Typing          2..99
                     /name="rep_cluster_2344"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.97"
                     /coverage="84.0"
                     /evalue="7.22e-39"
     Typing          5418..6078
                     /name="rep_cluster_2131"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.411"
                     /coverage="83.0"
                     /evalue="0.0"
     Typing          1044..1966
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 acctcctgaa tgtcgggcta ttggcaagag tattgcgaaa tacacgcaca ggaacttcac
       61 ggcggaaact ttcgcacagt atgtggctga tacgcacacg ccagaaatac aggccaagag
      121 aggcaggaaa ggtggcatcg ctaaaggcga agcctacgat gacaagcgtt tcatggcgct
      181 atgtatgctg gagaatggat attctcagaa agctattgcg gcgatgttgg aggtttctac
      241 tcgaaccatt cgaaactgga aaagcggaaa atagcctata tcagataaca gcgcctttct
      301 ggcgtttttt tgagcagtag gtcttttgcc gtttttcccc gttcagccct gcaatggtgc
      361 tgttttccgc atgattgtgc tggtagtgct cgccgcagtc tcatgaccga gcgtagcgag
      421 cgaatgagcg aggaagcacc agggaaccgg aacacggatg gaggcactta cgcgtctggg
      481 tttggggatg tctccagatc gtacttaatt tccttaagtg cctgtaatat cctgtctttt
      541 ttatagcata gctcgcctgt ttttgtgtct accagtcctg cttcgatcag tagcccagcc
      601 gcgagaaaga gtcggtgatt gcgttctcgt cgttgttttt ttccctcgat tcgtttttgg
      661 accgcctgtt ttcgttcgct ctcctgtgcc tgtaagtcgt ttttttccgc tgttgccagt
      721 acgtggagga gtttgcgttc ctgttctgtg agtcctgctt cgttgtcgag caggtcaata
      781 atctgtctct gtcgtgcggt ctgttctccg agcttcctga tgaatccgat ccgtttcttc
      841 agccattcga tgttgctgat gcgcatgttc gcggtgctcc ctggtgtttt ttgcggtgtg
      901 ttgtggtcgt gcagtatatc gcttgcggtc ggtgggtgca ggggggtatc ttccgtgcta
      961 attcgtaaaa ttagaaggaa gcgcacttat atgtttctct ccttcgtcga gaaacagtgc
     1021 gctcctgcgg agggctgaaa ccgtggcaac ctatcacctc agcgttaaat ttggtggcaa
     1081 ggggcaggct gcaaaccacg ccgattacat cgagcgcaaa gagaaatacc gcgaccgtca
     1141 ggatttggaa tattccgcac acggaaacat gccggaatgg gcgcgagata atccctcaca
     1201 tttctggcag gcggctgacc agtttgaacg tgcgaacggt tcgacctatc gggaacttga
     1261 aattgcatta ccccgtgaac tgacagcgga acagcgcctt gaactggtgc aggattttgt
     1321 acgtcaggaa gctggcgaac ggcacgcctg gagttttgcc attcacaatc cgaaagcgag
     1381 cattgacggc ggcgaacagc ctcatgcgca tatcatgatg agccagcgtg tgaatgatgg
     1441 cattgaacgt acaccggaac agtatttccg gcgctataac gccaggtatc ccgagcgggg
     1501 aggtgcgaaa aaggattccg gaagcctgac tctcactcag caaaaagagc agttgcggga
     1561 attgcgaaaa cgctgggagg tgaagcacaa cgaacatatg agaaagcatg gctttgaaag
     1621 gggcttcatt gactgccgga cgctgaaaga acagggcatt gaacgacgtc ccgaagtgca
     1681 tctgggtttt gaagctgccg gacggcttga tgatgcccag cgtcatgaca tcatgcaaaa
     1741 acggtctgaa ccggactatt cccgccatct tgaacaggcg cgaacggtcg ggcatgacat
     1801 cagggaatgg ctggacactc cggttaagca acatgaactg gtcagaaggc tgcaacatga
     1861 tgttgcgcgg gagcatggct ttgacatgag agacagagtg agcagacaga accgaactga
     1921 acctgaacgg gttaaatcac cgtcacgtgg attttctatg ggattctgaa catggccagc
     1981 acagaagaaa aattactcac gctcctgtta tcggtggagc atctgcaaca taccgcaatg
     2041 gagcaacaga aagctgttgc tgattctctg gctgtggcaa gggaaatact tcgcggatat
     2101 cgggatattt ctgacggtgt ggcaaaacag gtcagggatg aagtcagaaa cgaggtgcag
     2161 aagctggatg ttgcagggct gataggtgag cgcatcagcc aggattttca gcggctggaa
     2221 gagtcagtcg caaacatgaa ggcaaacgcg gatgccctga acagggatat tgcgacaatt
     2281 cacagcaata tcgtgcagga atacaacacc cttaaagggt atagctggaa atggctgggt
     2341 ggggtgtcag tggcttttct ggttatgttc tgtgtgcttg gatggggaat gaaaacaatg
     2401 ctcgacagga actacaacgc cacagcggcg gtgtatcaga aagttgtgac actggaagat
     2461 aaactggcgg agaaacctgt cacgggcaag agccggaaaa actgacgcgc ttcgcttgtc
     2521 caacgcctca cgacccgcga aaggatttcg cgttctgttc accgttttca tgagtgattc
     2581 ctccgaactg ccaaaaaata tcctccccct gacttgacag aaaaaataat ggcgagtact
     2641 ttttgatctg tacataaaac cagtggtttt atgtacagta ttaactatgt aattaattgt
     2701 tttaacgctt aaaagaggga atttttatga gcggtggaga tggacgcgac cacaacagtg
     2761 gcgcacataa cacaggtggt aacattaatg gcggccctac ggggcttggt ggaaatggtg
     2821 gggcttctga cggctccgga tggagttcgg aaaataaccc atggggtggc ggttctggta
     2881 gtggtgttca ctggggaggt ggctccggcc atggcaatgg cggggggaat ggtaattccg
     2941 gtggtggcag caattcatcc gtagcagcag tggcatttgg ttttcctgct ttggcagctc
     3001 ctggtgccgg aacactgggt atcgccgtct ctggtgaggc tttatctgcg gcaatagcgg
     3061 atatctttgc agccctgaaa ggtccgttta aattcagtgc atggggtatt gcgctttacg
     3121 gcattctgcc atctgaaata gcaaaagatg acccgaaaat gatgtcaaag attgtgacgt
     3181 cattaccggc agaaacagta acaaatgttc aggtcagtac acttccgctg gaccaggcaa
     3241 ctgttagcgt gacaaaacgt gtgaccgatg ttgtgaagga cacacgacag catattgccg
     3301 tagttgcagg tgtacctatg agtgtgcctg ttgtgaatgc taaaccaaca cgtaccccag
     3361 gtgtatttca cgcatcattt cctggtgtcc cttctctgac agtcagcacg gtcaaaggtc
     3421 ttcctgtgtc aacaaacctt ccccgtggta ttacggagga taagggccgg actgccgttc
     3481 ctgcaggatt tacctttggt ggtggttcac atgaagcggt gatccgtttc ccgaaagaaa
     3541 gtgggcagaa gccgatttat gtatcagtga cagatgttct tacccctgca caggtaaaac
     3601 aacgtcagga tgaggaaaat cgcctccagc aggaatggaa tgacacacat cctgtagaag
     3661 tggctgaacg caattatgaa caggcccgcg cagaactgga tcaggctaat aaagatgttg
     3721 ccagaaacca ggaacgacag gctaaagctg ttcaggttta taattctcgt aaaagtgaac
     3781 ttgatgcagc gaataaaact cttgctgatg caaaggctga aataaaacaa ttcgagcgat
     3841 ttgcccgaga accaatggct gctggtcacc gaatgtggca aatggcaggg cttaaggccc
     3901 agcgggcaca gacggatgta aataataaga aggctgcatt tgatgctgct gcaaaagata
     3961 agtctgatgc tgatgctgcg ttaggtgctg cgctggaacg ccgtaagcag aaggaaaata
     4021 aagaaaagga ctctaaggat aaattagata aggagagtaa acggaataag ccagggaagg
     4081 cgacgggtaa aggaaaacca gttggtgata aatggcttga tgatgcgggt aaagattcag
     4141 gagctccaat tcctgatcgc attgctgata agttgcgtga taaagaattt aaaagttttg
     4201 acgatttccg gaagaaattc tgggaagaag tgtcaaaaga tcccgagctt agtaagcaat
     4261 ttaaagacag taataagacg aacattcaaa agggaaaagc accttttgca aggaagaaag
     4321 accaagtagg tggtagggaa cgctttgaat tacatcatga taaaccaatc agtcaggatg
     4381 gtgatgtcta tgatatggat aatatcagag tgaccacacc taagcgacat attgatattc
     4441 atagaggtaa gtaaaaatgg aactgaaaca tagtattagt gattataccg aggctgaatt
     4501 tctggagttt gtaaaaaaaa tatgtagagc tgaaggtgct actgaagagg atgacaataa
     4561 attagtgaga gagtttgagc gattaactga gcacccagat ggttcagatc tgatttatta
     4621 tcctcgcgat gacagggaag atagtcctga agggattgtt aaagaaatta aagaatggcg
     4681 agctgctaac ggtaagccag gatttaaaca gggctaaaat atgaatgccg gttgtttatg
     4741 gatgaatggc tggcattctt tcacaacaag gagtcgttat gaaaaaaata acagggatta
     4801 ttttattgct tcttgcagtc attattctgg ctgcatgtca ggcaaactat atccgggatg
     4861 ttcagggcgg gactgtatcc ccgtcatcaa cagctgaagt gaccggatta gcaacgcagt
     4921 aacccgaaat cctctttgac aaaaacaaag cgtgtcaggc tgattctgat gcgctttttt
     4981 ttgaaatgtc acaaaaattc catgcgggag atgagagcta aaatccccgt gcagaacttt
     5041 ccacccaggg ggagaaaact tgtcattttg acctgttcgc ccttcggaac agtcgaaatc
     5101 gatcgcgcat cgctttcgtg catagttatg cagccctcta aaaacgattc tggcgcgttt
     5161 ttctggttta gcctggtgtt tccttgtctt tttgcgtttt ttgcgccaga aagcgattga
     5221 gggcgtttta cagggtacgt acaacgggag ttatggtaaa tggatcgggt tttcgggaag
     5281 gatcgacagg atttgccgtt gggtgtagtg taagcgactg aaaaacaaac gcccctgaaa
     5341 ttcgtgtctc tccgccaaga ttgtcacgag aatacagggg cgaggtcggt cgataaccta
     5401 gaaggaatcg taacacatga gcgccgcgct tcaatacttc gaagaaaatt tacccctccg
     5461 cccctatcac acggatgatc tcgctttcgg ccttcgtatc tccggtaaag ggcgcgcgct
     5521 tcttgcacgg tatatccagc agaaccaacc tcatgcgcag ttctggctgg tttttgacgt
     5581 tgaccgcgag ggggctgcga ttgactggag cgacctgaac gcccccgcac cgaacatcac
     5641 cataaaaaat cccgtgaacg gtcacgccca cctgctctac gcactcaata tcgccgtgag
     5701 aaccgcgcct gatgcttcgg ttaaggcgct gaaatacgcc gccgcgattg aacgtgcgtt
     5761 gtgtgaaaaa ctgggcgcag atgtaaacta cagcggactg atttgcaaaa atccgttcca
     5821 tctggaatgg caggtgatgg agtggcgtga ggaagcctat accctcgatg aactggctga
     5881 ttatctcgat ttgagcactt cagcgcgccg tagcatcgat aaacattacg ggatggggcg
     5941 aaactgccat ctgttcgaaa tgacgcgcaa atgggcttac agggcgattc gtcagggctg
     6001 gccagcattc tcacagtggc ttgatgccgt gattcagcgt gtcgaaatgt acaacgcatc
     6061 gcttcccgtt ccgctttc
//
