LOCUS       NZ_AP027976             3902 bp    DNA     circular CON 25-JUN-2023
DEFINITION  Escherichia coli strain VE-V10-F plasmid pVE-V10-F_5, complete
            sequence.
ACCESSION   NZ_AP027976
VERSION     NZ_AP027976.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00587240
            Assembly: GCF_030162175.2
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  JOURNAL   Unpublished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                   :: 50x
            Sequencing Technology             :: Illumina MiSeq; ONT MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/23/2023 18:33:19
            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)                     :: 5,125
            CDSs (total)                      :: 5,005
            Genes (coding)                    :: 4,718
            CDSs (with protein)               :: 4,718
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 287
            CDSs (without protein)            :: 287
            Pseudo Genes (ambiguous residues) :: 0 of 287
            Pseudo Genes (frameshifted)       :: 108 of 287
            Pseudo Genes (incomplete)         :: 182 of 287
            Pseudo Genes (internal stop)      :: 47 of 287
            Pseudo Genes (multiple problems)  :: 49 of 287
            Pseudo Genes (short protein)      :: 4 of 287
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP027976.1.
            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-V10-F"
                     /db_xref="taxon:562"
                     /plasmid="pVE-V10-F_5"
                     /geo_loc_name="Viet Nam:Hanoi"
                     /lat_lon="20.95712843 N 105.82005564 E"
                     /collection_date="2020-07-03"
     gene            complement(join(3581..3902,1..1034))
                     /locus_tag="QQK73_RS25600"
     CDS             complement(join(3581..3902,1..1034))
                     /locus_tag="QQK73_RS25600"
                     /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            complement(1382..1705)
                     /gene="mobA"
                     /locus_tag="QQK73_RS25605"
                     /old_locus_tag="VEV10F_49120"
     CDS             complement(1382..1705)
                     /gene="mobA"
                     /locus_tag="QQK73_RS25605"
                     /old_locus_tag="VEV10F_49120"
                     /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"
     gene            1977..2171
                     /locus_tag="QQK73_RS25610"
                     /old_locus_tag="VEV10F_49130"
     CDS             1977..2171
                     /locus_tag="QQK73_RS25610"
                     /old_locus_tag="VEV10F_49130"
                     /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            complement(2971..3588)
                     /locus_tag="QQK73_RS25615"
                     /old_locus_tag="VEV10F_49140"
     CDS             complement(2971..3588)
                     /locus_tag="QQK73_RS25615"
                     /old_locus_tag="VEV10F_49140"
                     /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"
     Typing          complement(1715..1940)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="89.167"
                     /coverage="99.0"
                     /evalue="4.9e-75"
     Typing          2201..2730
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.413"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          complement(1386..1705)
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.065"
                     /coverage="100.0"
                     /evalue="4.35e-60"
ORIGIN
        1 gatccctttt tgttaacatc aggatcatta aatagcttaa caattagatc tgcaatatgt
       61 ggatgcaaac tattatctag ttcatcgata atcacaacca tgctgttatt aaatgcactt
      121 ctaattaaag gtattatttc aaataacttc tgagtgcctt cagactctct ggacatagga
      181 aaagaaacac tcccgccctc ctcagttgca tgagaaaaca aatatcgata cttataatcc
      241 tcctctatca tttcttttat ttctggagga atatcatcat ccattcttat tggtaaatca
      301 gattctactt ctcgcacgga tattccagca acacctgtat caaccatgca cagaacctca
      361 gcggtttcac ttactacttc ctctctttta ccaaaagatg agattcttat tttttcatta
      421 agacctatat gccttatccc tttcctaaaa aagtcataag cttctttaat tatatctgga
      481 gatgccgcat tattaccggc cttggccaaa tatgagttat tagggaagaa tggtattttt
      541 ttcaccccac ctctataatg accaccaaac ttaattgttt cccatgtgtc gccttcatcc
      601 ctagtaaaca aattagcctt taccctagac ggatagtaat ccaatgactc gaatataatt
      661 cgatctttaa tatatttaac ctcataatta aaacgattcc cctcaacaga gtaaaaatca
      721 gccacaaacc gaactggtga ctcattcgta gccaacgaga gggcatacgg ttcgtagcat
      781 ggaattcgag ttccttcctt cagatccccg ctatctgtag caatatattt aatagcctca
      841 aaagccatga gaacgttgga cttacctgac gcattcgccc cataaatccc agcactcata
      901 agtgttccaa cagacatctc ggcgttttta taaatatgat taactaaatg gctatttgag
      961 ccagacgcac ttaaatcaag cgtaaagttt tcctttacgg atctaaaatt ttcaatagtc
     1021 aaacgaacaa acataggcaa ctcctaaatg agttttttcg ccaaaaaagc gaaaaaaaag
     1081 caataaacaa gatacagcac atgctttaaa tttgaaacaa catcatcata aagaatcttg
     1141 tacgaccatt caccacacaa catttaacat aacctataaa ttgtacgcac cactgaaacg
     1201 cgctgaacgc gattctgacg cagacaccgc aaaaagagat gttttacccc gggaaaacag
     1261 gaaggatgcg tcaggatcgt tttcagctcg ctgcatagct atgcatgaaa gcgaatggtg
     1321 atcactttgg gagcttacgg tgttcatacc gtctgttttc gacagttttc tctccgggaa
     1381 gctaatctgc cataagcctg gataacaggg cacggtgata ctccgtaata gcgatcagca
     1441 cctccgcata ctccctgtcc ccgacacgct tgccgtcgat aaagagtttt ttctgcaacg
     1501 cccccagtcg catgacttct ttcagcaccc ggtcatcagt cagtgaatta actttcttac
     1561 cgagagctgc cgcccgtaaa aaaccagaaa cggtcttgcc gcattcagca gccctttttc
     1621 tgatttcctg gtcttcttct gccgtcagac gaacagggcg actgatagcc cgcctgcgcg
     1681 tattacttcc acttcgtttt gtcataaaac atggctccgt atctgacata gggtgtcggg
     1741 gcgaagccct gaccagggta attgtaatag cgtgcatgta tgcgcggtat aacaattgca
     1801 catcctgtcc tgtctgcaag ttcgaattac caacaaagca ctgctgtttt ttggcagtga
     1861 cagtgttgtc tgactgaaat atccgtcggc agaataccgg cggtaagacg gtcgaaaagt
     1921 ggtgcgcgat ataatcacac gacgcagatg acagacagaa cggagaaaac agaaagatga
     1981 acaagcagca gcaaactgta ctcaacatgg cgggattcat aaaaagccag agcctaacac
     2041 tgctcgaaaa gctggacgca ctcgatgccg acgaacaggc cgccatgtgt gagaagctgc
     2101 acgaactcgc ggaagaactc cagaacagca tacagacacg ctttgaagta gaaaatagca
     2161 cagagatata acgctcaggg caggatgccg aacggcacaa cagagcgtaa ggagaaaatg
     2221 tcacataagg cgctcttccg cttcctcgct cactgactcg ctacgctcgg tcgttcgact
     2281 gcggcgagcg gtgtcagctc actcaaaggc ggtaatacgg ttatccacag aatcagggga
     2341 taaagccgga aagaacatgt gagcaaaaag caaagcaccg gaagaagcca gcaccgcagg
     2401 cgtttttcca taggctccgc ccccctgacg agcatcacaa aaatcgacgc tcaagtcaga
     2461 ggtggcgaaa cccgacagga ctataaagat accaggcgtt tccccctgga agctccctcg
     2521 tgcgctctcc tgttccgacc ctgccgctta ccggatacct gtccgccttt ctcccttcgg
     2581 gaagcgtggc gctttctcat agctcacgct gtaggtatct cggcccggtg taggtcgttc
     2641 gctccaagct gggctgtgtg cacgaacccc ccgttcagcc cgaccgctgc gtcttatccg
     2701 gtaactatcg tcttgagtcc aacccggtaa gacacgactt aacgccactg gcagcagcca
     2761 ctggtaaccg atttagagga gttagtcttg aagtcatgcg ccagttaagg ctaaactaaa
     2821 aggacaagtt ttggtgactg cgctcctcta agccagttac ccggtacata agttggtagc
     2881 tcatgtacct tctaaaaacc accgttggta gcggtggttt ttattttcta tagattacaa
     2941 ccagcaataa gccatggtca atggattaat tcaaaagtta tcaatcgcat caagtaactt
     3001 atgaaatgat gtataacatg gaaatttata tggctcatgt atattttcgt tatctgattt
     3061 agcgaaaatc tctagttgcg ccgcattttt tctcgccttc ccaatcctat tcttcaaaac
     3121 atcatatgtt gaactactac ctttattata atttggcaac agacccttaa acggtgagtc
     3181 agacattaaa ttttcataag atgaaaaaga tcttgttgta taaccaaagt gcaacaacaa
     3241 ccacagttca aaacaaacac aagatatagc tatatttata ccgtgtctat tagctttgtt
     3301 ccacgccctt tgatggcaca aaacagactg cgtagtcaaa tgctcttgat cataaacgac
     3361 ccaaaactca tcaccatccg cagtggatga tgaattcttt ttctttatcg cctcatctac
     3421 tagctgctct ggtgtatttt tccttgtttt aggtatttta aacacactca acgttcttct
     3481 tgaattttca gatatataag attcaagata caacggctcc gtcttctccc cttcacaata
     3541 tatatacatc actcgaggaa catttctccc tcccttcctt ttagtcatta gaaagatcct
     3601 cgttaaactc ttcgaaaaaa tcaccagcaa gagcatcaac atcaatatca tgaatagcag
     3661 tcatagcatt tcctgatagg aatttagcta ctttcaaata attaatatca ggaacgccgc
     3721 caaaccggcc ctcatcatac caactagcat aaggtgttgt tgtttttact tttttcttat
     3781 caaaatcatc taaactgtat aatgccgaag cacctttgtt tttttcgcaa aaccatatct
     3841 gatcccttct cattttttca ggagtcatca actgcatatt atgcgtagag aatattagct
     3901 ga
//
