LOCUS       NZ_AP027983             3902 bp    DNA     circular CON 25-JUN-2023
DEFINITION  Escherichia coli strain VE-V11-M plasmid pVE-V11-M_5, complete
            sequence.
ACCESSION   NZ_AP027983
VERSION     NZ_AP027983.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00587241
            Assembly: GCF_030162195.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1
  AUTHORS   Suzuki,M., Vu,T.M.H. and Kasuga,I.
  TITLE     Whole genome sequencing of colistin-resistant Escherichia coli
            isolated from Vietnam
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3902)
  AUTHORS   Suzuki,M., Vu,T.M.H. and Kasuga,I.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-APR-2023) Contact:Masato Suzuki National Institute of
            Infectious Diseases, Antimicrobial Resistance Research Center; 4-2-1
            Aobacho, Higashimurayama, Tokyo 189-0002, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Coverage                   :: 1249x
            Sequencing Technology             :: Illumina MiSeq; ONT MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/23/2023 18:09:47
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,835
            CDSs (total)                      :: 4,713
            Genes (coding)                    :: 4,363
            CDSs (with protein)               :: 4,363
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 350
            CDSs (without protein)            :: 350
            Pseudo Genes (ambiguous residues) :: 0 of 350
            Pseudo Genes (frameshifted)       :: 214 of 350
            Pseudo Genes (incomplete)         :: 157 of 350
            Pseudo Genes (internal stop)      :: 52 of 350
            Pseudo Genes (multiple problems)  :: 65 of 350
            Pseudo Genes (short protein)      :: 4 of 350
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP027983.1.
            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..3902
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="VE-V11-M"
                     /db_xref="taxon:562"
                     /plasmid="pVE-V11-M_5"
                     /geo_loc_name="Viet Nam:Hanoi"
                     /lat_lon="20.95329501 N 105.83197885 E"
                     /collection_date="2020-07-03"
     gene            join(3886..3902,1..1339)
                     /locus_tag="QQK36_RS24135"
     CDS             join(3886..3902,1..1339)
                     /locus_tag="QQK36_RS24135"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA];
                     GO:0016887 - ATP hydrolysis activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="ATP-binding protein"
                     /protein_id="WP_000498067.1"
                     /translation="MFVRLTIENFRSVKENFTLDLSASGSNSHLVNHIYKNAEMSVGTL
                     MSAGIYGANASGKSNVLMAFEAIKYIATDSGDLKEGTRIPCYEPYALSLATNESPVRFV
                     ADFYSVEGNRFNYEVKYIKDRIIFESLDYYPSRVKANLFTRDEGDTWETIKFGGHYRGG
                     VKKIPFFPNNSYLAKAGNNAASPDIIKEAYDFFRKGIRHIGLNEKIRISSFGKREEVVS
                     ETAEVLCMVDTGVAGISVREVESDLPIRMDDDIPPEIKEMIEEDYKYRYLFSHATEEGG
                     SVSFPMSRESEGTQKLFEIIPLIRSAFNNSMVVIIDELDNSLHPHIADLIVKLFNDPDV
                     NKKGSQLIFSTHNMQLMTPEKMRRDQIWFCEKNKGASALYSLDDFDKKKVKTTTPYASW
                     YDEGRFGGVPDINYLKVAKFLSGNAMTAIHDIDVDALAGDFFEEFNEDLSND"
                     /name="ATP-binding protein"
     gene            1332..1949
                     /locus_tag="QQK36_RS24140"
                     /old_locus_tag="VEV11M_46840"
     CDS             1332..1949
                     /locus_tag="QQK36_RS24140"
                     /old_locus_tag="VEV11M_46840"
                     /inference="COORDINATES: protein motif:HMM:NF025084.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="RloB family protein"
                     /protein_id="WP_000166785.1"
                     /translation="MTKRKGGRNVPRVMYIYCEGEKTEPLYLESYISENSRRTLSVFKI
                     PKTRKNTPEQLVDEAIKKKNSSSTADGDEFWVVYDQEHLTTQSVLCHQRAWNKANRHGI
                     NIAISCVCFELWLLLHFGYTTRSFSSYENLMSDSPFKGLLPNYNKGSSSTYDVLKNRIG
                     KARKNAAQLEIFAKSDNENIHEPYKFPCYTSFHKLLDAIDNF"
                     /name="RloB family protein"
     gene            complement(2749..2943)
                     /locus_tag="QQK36_RS24145"
                     /old_locus_tag="VEV11M_46850"
     CDS             complement(2749..2943)
                     /locus_tag="QQK36_RS24145"
                     /old_locus_tag="VEV11M_46850"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041624.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_001041643.1"
                     /translation="MNKQQQTVLNMAGFIKSQSLTLLEKLDALDADEQAAMCEKLHELA
                     EELQNSIQTRFEVENSTEI"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3215..3538
                     /gene="mobA"
                     /locus_tag="QQK36_RS24150"
                     /old_locus_tag="VEV11M_46860"
     CDS             3215..3538
                     /gene="mobA"
                     /locus_tag="QQK36_RS24150"
                     /old_locus_tag="VEV11M_46860"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:NP_052604.1"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization protein MobA"
                     /protein_id="WP_000166966.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQEIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     Typing          2981..3206
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="89.167"
                     /coverage="99.0"
                     /evalue="4.9e-75"
     Typing          complement(2191..2720)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.413"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          3216..3535
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="4.35e-60"
ORIGIN
        1 tattgaaaat tttagatccg taaaggaaaa ctttacgctt gatttaagtg cgtctggctc
       61 aaatagccat ttagttaatc atatttataa aaacgccgag atgtctgttg gaacacttat
      121 gagtgctggg atttatgggg cgaatgcgtc aggtaagtcc aacgttctca tggcttttga
      181 ggctattaaa tatattgcta cagatagcgg ggatctgaag gaaggaactc gaattccatg
      241 ctacgaaccg tatgccctct cgttggctac gaatgagtca ccagttcggt ttgtggctga
      301 tttttactct gttgagggga atcgttttaa ttatgaggtt aaatatatta aagatcgaat
      361 tatattcgag tcattggatt actatccgtc tagggtaaag gctaatttgt ttactaggga
      421 tgaaggcgac acatgggaaa caattaagtt tggtggtcat tatagaggtg gggtgaaaaa
      481 aataccattc ttccctaata actcatattt ggccaaggcc ggtaataatg cggcatctcc
      541 agatataatt aaagaagctt atgacttttt taggaaaggg ataaggcata taggtcttaa
      601 tgaaaaaata agaatctcat cttttggtaa aagagaggaa gtagtaagtg aaaccgctga
      661 ggttctgtgc atggttgata caggtgttgc tggaatatcc gtgcgagaag tagaatctga
      721 tttaccaata agaatggatg atgatattcc tccagaaata aaagaaatga tagaggagga
      781 ttataagtat cgatatttgt tttctcatgc aactgaggag ggcgggagtg tttcttttcc
      841 tatgtccaga gagtctgaag gcactcagaa gttatttgaa ataatacctt taattagaag
      901 tgcatttaat aacagcatgg ttgtgattat cgatgaacta gataatagtt tgcatccaca
      961 tattgcagat ctaattgtta agctatttaa tgatcctgat gttaacaaaa agggatctca
     1021 gctaatattc tctacgcata atatgcagtt gatgactcct gaaaaaatga gaagggatca
     1081 gatatggttt tgcgaaaaaa acaaaggtgc ttcggcatta tacagtttag atgattttga
     1141 taagaaaaaa gtaaaaacaa caacacctta tgctagttgg tatgatgagg gccggtttgg
     1201 cggcgttcct gatattaatt atttgaaagt agctaaattc ctatcaggaa atgctatgac
     1261 tgctattcat gatattgatg ttgatgctct tgctggtgat tttttcgaag agtttaacga
     1321 ggatctttct aatgactaaa aggaagggag ggagaaatgt tcctcgagtg atgtatatat
     1381 attgtgaagg ggagaagacg gagccgttgt atcttgaatc ttatatatct gaaaattcaa
     1441 gaagaacgtt gagtgtgttt aaaataccta aaacaaggaa aaatacacca gagcagctag
     1501 tagatgaggc gataaagaaa aagaattcat catccactgc ggatggtgat gagttttggg
     1561 tcgtttatga tcaagagcat ttgactacgc agtctgtttt gtgccatcaa agggcgtgga
     1621 acaaagctaa tagacacggt ataaatatag ctatatcttg tgtttgtttt gaactgtggt
     1681 tgttgttgca ctttggttat acaacaagat ctttttcatc ttatgaaaat ttaatgtctg
     1741 actcaccgtt taagggtctg ttgccaaatt ataataaagg tagtagttca acatatgatg
     1801 ttttgaagaa taggattggg aaggcgagaa aaaatgcggc gcaactagag attttcgcta
     1861 aatcagataa cgaaaatata catgagccat ataaatttcc atgttataca tcatttcata
     1921 agttacttga tgcgattgat aacttttgaa ttaatccatt gaccatggct tattgctggt
     1981 tgtaatctat agaaaataaa aaccaccgct accaacggtg gtttttagaa ggtacatgag
     2041 ctaccaactt atgtaccggg taactggctt agaggagcgc agtcaccaaa acttgtcctt
     2101 ttagtttagc cttaactggc gcatgacttc aagactaact cctctaaatc ggttaccagt
     2161 ggctgctgcc agtggcgtta agtcgtgtct taccgggttg gactcaagac gatagttacc
     2221 ggataagacg cagcggtcgg gctgaacggg gggttcgtgc acacagccca gcttggagcg
     2281 aacgacctac accgggccga gatacctaca gcgtgagcta tgagaaagcg ccacgcttcc
     2341 cgaagggaga aaggcggaca ggtatccggt aagcggcagg gtcggaacag gagagcgcac
     2401 gagggagctt ccagggggaa acgcctggta tctttatagt cctgtcgggt ttcgccacct
     2461 ctgacttgag cgtcgatttt tgtgatgctc gtcagggggg cggagcctat ggaaaaacgc
     2521 ctgcggtgct ggcttcttcc ggtgctttgc tttttgctca catgttcttt ccggctttat
     2581 cccctgattc tgtggataac cgtattaccg cctttgagtg agctgacacc gctcgccgca
     2641 gtcgaacgac cgagcgtagc gagtcagtga gcgaggaagc ggaagagcgc cttatgtgac
     2701 attttctcct tacgctctgt tgtgccgttc ggcatcctgc cctgagcgtt atatctctgt
     2761 gctattttct acttcaaagc gtgtctgtat gctgttctgg agttcttccg cgagttcgtg
     2821 cagcttctca cacatggcgg cctgttcgtc ggcatcgagt gcgtccagct tttcgagcag
     2881 tgttaggctc tggcttttta tgaatcccgc catgttgagt acagtttgct gctgcttgtt
     2941 catctttctg ttttctccgt tctgtctgtc atctgcgtcg tgtgattata tcgcgcacca
     3001 cttttcgacc gtcttaccgc cggtattctg ccgacggata tttcagtcag acaacactgt
     3061 cactgccaaa aaacagcagt gctttgttgg taattcgaac ttgcagacag gacaggatgt
     3121 gcaattgtta taccgcgcat acatgcacgc tattacaatt accctggtca gggcttcgcc
     3181 ccgacaccct atgtcagata cggagccatg ttttatgaca aaacgaagtg gaagtaatac
     3241 gcgcaggcgg gctatcagtc gccctgttcg tctgacggca gaagaagacc aggaaatcag
     3301 aaaaagggct gctgaatgcg gcaagaccgt ttctggtttt ttacgggcgg cagctctcgg
     3361 taagaaagtt aattcactga ctgatgaccg ggtgctgaaa gaagtcatgc gactgggggc
     3421 gttgcagaaa aaactcttta tcgacggcaa gcgtgtcggg gacagggagt atgcggaggt
     3481 gctgatcgct attacggagt atcaccgtgc cctgttatcc aggcttatgg cagattagct
     3541 tcccggagag aaaactgtcg aaaacagacg gtatgaacac cgtaagctcc caaagtgatc
     3601 accattcgct ttcatgcata gctatgcagc gagctgaaaa cgatcctgac gcatccttcc
     3661 tgttttcccg gggtaaaaca tctctttttg cggtgtctgc gtcagaatcg cgttcagcgc
     3721 gtttcagtgg tgcgtacaat ttataggtta tgttaaatgt tgtgtggtga atggtcgtac
     3781 aagattcttt atgatgatgt tgtttcaaat ttaaagcatg tgctgtatct tgtttattgc
     3841 ttttttttcg cttttttggc gaaaaaactc atttaggagt tgcctatgtt tgttcgtttg
     3901 ac
//
