LOCUS       NZ_AP027821             3692 bp    DNA     circular CON 04-APR-2024
DEFINITION  Escherichia coli strain 2017.15.02CC plasmid p2017.15.02CC_3,
            complete sequence.
ACCESSION   NZ_AP027821
VERSION     NZ_AP027821.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00562602
            Assembly: GCF_036505475.1
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  JOURNAL   Unpublished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 3692)
  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                   :: 152x
            Sequencing Technology :: MGI DNBSEQ-G400RS; ONT MinION Mk1c
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_036505475.1-RS_2024_04_03
            Annotation Date                   :: 04/03/2024 23:59:08
            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)                     :: 4,886
            CDSs (total)                      :: 4,769
            Genes (coding)                    :: 4,542
            CDSs (with protein)               :: 4,542
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 227
            CDSs (without protein)            :: 227
            Pseudo Genes (ambiguous residues) :: 0 of 227
            Pseudo Genes (frameshifted)       :: 75 of 227
            Pseudo Genes (incomplete)         :: 154 of 227
            Pseudo Genes (internal stop)      :: 43 of 227
            Pseudo Genes (multiple problems)  :: 42 of 227
            Pseudo Genes (short protein)      :: 3 of 227
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP027821.1.
            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..3692
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="2017.15.02CC"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p2017.15.02CC_3"
                     /geo_loc_name="Viet Nam:Thai Binh"
                     /collection_date="2017"
     gene            complement(join(3651..3692,1..609))
                     /locus_tag="AABJ72_RS24405"
     CDS             complement(join(3651..3692,1..609))
                     /locus_tag="AABJ72_RS24405"
                     /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="VRR-NUC domain-containing protein"
                     /protein_id="WP_049595768.1"
                     /translation="MKLLDRQCEQLGIALFDICFPYSGKPELALLSKYRNDGFLGASCE
                     GGAILTLIKSCMLDGLARYNSFGDRDDAVNRYLEAQMTILSDKKEELIDIISHVPENTI
                     FDNYDEIISSPFIQSIYPTLSRELGMAMFYAIGREKISEIAAAFSADPYQYRSGWPDLT
                     LVYENCIEFVEVKTTDNLHKTQLTTIPMILQILPGTVSVCRLKNRTAAEIVKQ"
                     /name="VRR-NUC domain-containing protein"
     gene            943..1377
                     /locus_tag="AABJ72_RS24410"
                     /old_locus_tag="VEE59_47170"
     CDS             943..1377
                     /locus_tag="AABJ72_RS24410"
                     /old_locus_tag="VEE59_47170"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004193480.1"
                     /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_049595767.1"
                     /translation="MSKRITQIDTATGEEVGSFVAVIRPKQKSAFERHFTMNQDALKIL
                     AKTLTGEQFKVLMMLLADLDYENYIQIAQADIAEALGMQKTNVSRSVKALIDLSVILQG
                     PKVGRSYSYRLNPQFGWKGTVRNHKKALTNGLSVIQGGRS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(1605..1838)
                     /locus_tag="AABJ72_RS24415"
                     /old_locus_tag="VEE59_47180"
     CDS             complement(1605..1838)
                     /locus_tag="AABJ72_RS24415"
                     /old_locus_tag="VEE59_47180"
                     /inference="COORDINATES: protein motif:HMM:NF016769.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD/MobD family mobilization/exclusion protein"
                     /protein_id="WP_049595772.1"
                     /translation="MTELETHLLNALKRMEQQFSEQLKASEKAQAALQSMFERTAEDNA
                     TLLKQVSFLDNRVTVLSEQLKQFGNLYRQNRR"
                     /name="MbeD/MobD family mobilization/exclusion protein"
     gene            complement(1842..2348)
                     /locus_tag="AABJ72_RS24420"
                     /old_locus_tag="VEE59_47190"
     CDS             complement(1842..2348)
                     /locus_tag="AABJ72_RS24420"
                     /old_locus_tag="VEE59_47190"
                     /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_049595771.1"
                     /translation="MSVSLTLQERLKQQHLAESETIQSLTKQQLSSLRSELNGIFQQEL
                     NTMLEDMRRQLHDTKEDMRQSRQSMLLTVVKNRVIFPALSAVTILAVIFLSGWGLSTFQ
                     ESQITANWQQINSQKATLAALESKTAGLNIVQDKNGTFVVLPKGAKVDDSGWTVGKQQA
                     LRIVR"
                     /name="hypothetical protein"
     gene            2584..2994
                     /locus_tag="AABJ72_RS24425"
                     /old_locus_tag="VEE59_47200"
     CDS             2584..2994
                     /locus_tag="AABJ72_RS24425"
                     /old_locus_tag="VEE59_47200"
                     /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_049595770.1"
                     /translation="MIRLSDLTCAPWVIRVSQAIPGVNFTAQVIESLFCGISGRADVQA
                     FPGAKLNAGRHKMQLVMSGMGMPDPEDVVLIGFKPGERDLFKAIHEILLHFWRDLLLRG
                     ERQHARSVFVPEIERVNEVAGSLRGSPQDFRR"
                     /name="hypothetical protein"
     gene            complement(3081..3380)
                     /locus_tag="AABJ72_RS24430"
                     /old_locus_tag="VEE59_47210"
     CDS             complement(3081..3380)
                     /locus_tag="AABJ72_RS24430"
                     /old_locus_tag="VEE59_47210"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016239790.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization relaxosome protein MobC"
                     /protein_id="WP_049595769.1"
                     /translation="MEKRDNMLRVRFSDAEFEALKQLAEDAGCTMSELVRDHLGRVSVR
                     NKDVDRERIAMLNRINANLNMIARWVNTHKSAASSVEVVAHLMDIERHIRELSQ"
                     /name="plasmid mobilization relaxosome protein MobC"
     Typing          complement(1511..3084)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.571"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gcaaacagaa accgtacctg ggagaatttg tagaatcatt gggatggttg ttaactgggt
       61 tttatgaaga ttatcagtag tctttacttc tacaaactca atacaatttt catagactaa
      121 agtgagatct ggccatccac tacgatattg gtaagggtct gcagaaaatg cagcagctat
      181 ttctgatatt ttttcacggc caatggcata gaacattgcc atgcctagtt ctctggagag
      241 agtgggataa atgctttgta tgaaagggct agaaattatt tcatcgtaat tatcaaaaat
      301 cgtattttca ggaacatgac taattatgtc tataagctct tcttttttat cagataaaat
      361 tgtcatctgt gcttctaaat agcgatttac tgcgtcatcc cgatcaccaa aggagttgta
      421 tctggctaag ccgtctaaca tgcatgattt tataagagtt aagattgctc caccttcgca
      481 agaggcccct aaaaaaccat catttctata ttttgaaagc agagccaatt ctggctttcc
      541 agagtaggga aaacatatat caaacaaagc tattccaagc tgctcacact gcctatccag
      601 aagtttcatt tggtctctcc agttaaaaaa gccatcagat acatcaacga tttaattaca
      661 gtaaccgctc accgcaagtt ccggctgagg cgtaccgcag cgtagcgagg aacgaacagt
      721 cggaacgagg aagcggaata tcacctgaac gggcatagaa atgcttatgc actattcgat
      781 gaaaacaggg ggtctaccga ccatctaagc ctctccgcta taagatacag aaggagggct
      841 tctctcagcc cttgtgtggc gcggttctcg cttgacgata gttatcatta ttgataacgt
      901 tgttatcatt attgataact attttttggg agagcctctt aaatgagtaa aagaattact
      961 cagatagaca ctgctacagg ggaagaggta ggtagttttg tcgcagttat ccgacccaaa
     1021 cagaagtcag cttttgagag gcatttcact atgaaccaag acgcgttaaa gatccttgct
     1081 aaaaccctta caggggagca attcaaagtc ttgatgatgc tgttagctga tctcgattat
     1141 gaaaattaca ttcaaattgc ccaagctgat attgccgaag ctttaggcat gcagaaaacc
     1201 aatgtgagcc gttcagtgaa agctctcatc gacctgtctg tgatccttca gggccctaaa
     1261 gtagggcgca gttatagtta ccgcctgaat cctcagtttg gatggaaagg cactgtaagg
     1321 aaccacaaaa aggccctgac aaatggcctg agcgtgattc agggcggacg tagctgaata
     1381 gttaccttga aacgtaacta tgggctcttt gaactaaaat attattatgt tgtccaatac
     1441 gttacagaga tattcctctg taacgtattt tccccgccaa gcgcggtttt tttttacccg
     1501 ccatctctac atgcttggcc cgtaatacct gtttggcttc ggcgccggag gctccggttc
     1561 acgctgtttc tgctgcaacg cttcctgaaa ttccagctgc ttcctcaacg cctgttctgc
     1621 ctgtagaggt tcccgaactg cttcagctgc tccgacaata cagtcacccg attgtctaag
     1681 aagctgactt gcttcaacag cgtggcgttg tcttccgcag tacgctcgaa catgctctgc
     1741 aaggcggcct gcgccttctc ggaagctttc agctgctcgc tgaattgctg ctccatacgc
     1801 ttcaaggcgt tcaataagtg cgtttccagt tccgtcatgg tttacctcac gatccgcaga
     1861 gcttgctgct tcccgactgt ccagccgctg tcgtccactt tcgccccttt gggcagcacg
     1921 acgaacgtcc cgttcttgtc ctgaacgatg ttcaggcccg ctgttttgct ctccagcgcc
     1981 gccagcgtgg ctttctggct gttgatctgc tgccagttgg ccgtgatctg gctttcctga
     2041 aacgtactca ggccccagcc gctcagaaag ataacggcca agatcgtaac cgcgctcagg
     2101 gccgggaata tcacccggtt tttcacgacg gtcagcaaca tgctctgccg gctctggcgc
     2161 atatcctctt tcgtgtcgtg cagctgccgg cgcatatctt ccagcatggt attcagctct
     2221 tgctgaaata tgccgttcaa ctcgcttcgc aaactgctca gctgctgctt cgtcaggctt
     2281 tgaatagtct cgctctctgc gagatgctgc tgcttcaatc gctcctgcag cgtcaaactc
     2341 acgctcataa agtccccctt tcatgcgcca ccgctggccg ctctgcggat ctgacacggt
     2401 gatgtaattt ttaccttcgc gcgttacctg cattccaagg tctgaaacct gctcgataac
     2461 gtcgctacga ctgcgtataa gcccctgtgc ggccctctga gacaaaaccg cgtctatgag
     2521 tagcctgacg tcttcctgcg gcttctcgcc ccttctgagg gcttctgcgg cgattttcag
     2581 ctcatgatca ggctgagcga tctcacgtgc gcgccgtggg tcatccgggt cagccaggcc
     2641 atacctggcg ttaatttcac tgcgcaggtc atcgaaagcc tgttttgcgg catctccggg
     2701 cgggcggatg ttcaggcttt tcccggtgct aagctcaacg cggggcgtca caaaatgcag
     2761 ctcgtgatgt ccggcatggg tatgcctgac ccagaggatg ttgtactgat cggcttcaag
     2821 cccggcgaac gcgacctgtt caaagcgatc catgaaatcc tgctccattt ctggcgtgac
     2881 cttctcctcc ggggcgaaag acagcacgcc agaagtgtat ttgtgccgga aatcgagcga
     2941 gtcaatgagg ttgcgggtag cctccgggga tcccctcagg acttccggcg gtgaatcttc
     3001 ccgaccgggc cgcgttttat cggtgacata gccgaccggc ccactgccac cgccagtgcc
     3061 gtgcctgctg aaacccacaa tcattgcgac agctcccgaa tatggcgctc gatatccatc
     3121 aggtgagcaa cgacctcaac cgaggaagcc gccgatttat gcgtattaac ccagcgggca
     3181 atcatgttca ggttggcatt gatgcggtta agcatggcaa tccgttcccg atcgacgtct
     3241 ttgtttcgca cgctgaccct gccgagatga tcgcgaacca gctcggacat ggtgcagcct
     3301 gcatcttcgg ccagctgctt cagcgcctca aattccgcgt cagaaaacct gacccgcagc
     3361 atgttatcgc gcttttccat tccacctcca tcgtcgcata ttgcacttta aacaaggcta
     3421 cccgatgttg ctacatttcg ctacgctcaa tgtcgcacac cgggccttgc aatgggagac
     3481 ttcgcctccc cttgacccct cccttgcagc ggtcgctttg ctccctcgcc cagggcaacg
     3541 gcgtctatca ggtggatggc ctcacttcgt gaaaccatcc acctctggta aggatatcta
     3601 tgggggtgtc atcaaacagt aaatcggaac cccaaagggg cccccacgat ttactgtttg
     3661 acgatttcag cggcagtacg attttttaga cg
//
