LOCUS       NZ_CP090460             2809 bp    DNA     circular CON 08-DEC-2023
DEFINITION  Escherichia coli strain B379 plasmid pB379_4, complete sequence.
ACCESSION   NZ_CP090460
VERSION     NZ_CP090460.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN24645352
            Assembly: GCF_021441985.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 2809)
  AUTHORS   Yue,M.
  TITLE     Complete genome sequence of a Escherichia coli B379 carrying the
            blaNDM-5 gene
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2809)
  AUTHORS   Yue,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-JAN-2022) Department of Clinical Laboratory, Sir Run
            Run Shaw Hospital, School of Medicine, Zhejiang University, 3
            Qingchun East Road, Hangzhou, Zhejiang 310016, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 12/08/2023 10:03:08
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,036
            CDSs (total)                      :: 4,917
            Genes (coding)                    :: 4,649
            CDSs (with protein)               :: 4,649
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 268
            CDSs (without protein)            :: 268
            Pseudo Genes (ambiguous residues) :: 0 of 268
            Pseudo Genes (frameshifted)       :: 79 of 268
            Pseudo Genes (incomplete)         :: 183 of 268
            Pseudo Genes (internal stop)      :: 49 of 268
            Pseudo Genes (multiple problems)  :: 44 of 268
            Pseudo Genes (short protein)      :: 3 of 268
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP090460.1.
            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..2809
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="B379"
                     /isolation_source="Pus"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pB379_4"
                     /geo_loc_name="China: Hangzhou"
                     /collection_date="2021-08-02"
                     /collected_by="Meina Yue"
     gene            451..849
                     /locus_tag="LZ684_RS25005"
                     /old_locus_tag="LZ684_25005"
     CDS             451..849
                     /locus_tag="LZ684_RS25005"
                     /old_locus_tag="LZ684_25005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019271600.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_201795940.1"
                     /translation="MPVIVVGELTDEQFETIRELQGREGFSLLESKEILYLGKHNYNSR
                     AKENYSIDDMILQIESALSADSIVSMKRGTTLENPHPRIDGYGNSVNDRAVLEMTSRKP
                     KAELFSVMPKGDNIKPQAASEDNENTAA"
                     /name="hypothetical protein"
     gene            1210..1617
                     /locus_tag="LZ684_RS25010"
                     /old_locus_tag="LZ684_25010"
     CDS             1210..1617
                     /locus_tag="LZ684_RS25010"
                     /old_locus_tag="LZ684_25010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001283459.1"
                     /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_097511054.1"
                     /translation="MKSSSLNEKWGDEALIMGWTAIPSSLLMLQKTLGINSVALNVLLN
                     LTASWWETAKNPYPSQQTIAERMGTSKRTVQRAIRELENLRLIEVKRTEITHPIFKGRN
                     IYDLSPLVEVLIKLTPSLKQLNRPSADHDLP"
                     /name="helix-turn-helix domain-containing protein"
     Typing          2368..2809
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.82"
                     /coverage="84.0"
                     /evalue="0.0"
ORIGIN
        1 agtccaaccc ggaaagacac gacaaaacgc cattggcagc agccattggt aagcaggatg
       61 tgcgagagat gcatcgagag atcttgaagt ggtacccgta ctgcggctac actgaaagga
      121 cagatttggt gacatgtctc gcacaagact gttacctcgg ttagaaaatc tgccaggatt
      181 atctaacctt agaaaagacc accttgccgg gtggtttttt tctttgcaaa gcaagactac
      241 gacgccaaag gcgacatcgt caagaaacct cacagctttc ctccttctcc cataggcctg
      301 cactccattt tttttgtttt tttcaatttg catcgataaa taattagtcc ttaagataag
      361 aaaaaaaatt aaggacccaa agtgcctcta tacgacaata taaagcccac tcttagatct
      421 catcttgaag cgataaggag aggtgatagg gtgcctgtaa tcgttgtagg tgagcttact
      481 gacgagcaat ttgaaacaat cagagagctt caaggaagag agggcttcag cttgctggaa
      541 agcaaggaaa tcctttactt agggaagcat aattacaata gccgagcgaa agaaaactat
      601 tcgatcgatg acatgatttt gcagatagaa agtgcattgt cggcagacag cattgttagc
      661 atgaaaagag gtacgacttt agaaaatcca catcctcgaa ttgatggata tggaaactct
      721 gtaaacgaca gagccgttct tgaaatgacg agcagaaagc caaaagcaga gttgttttct
      781 gttatgccaa aaggcgacaa cataaaacct caagctgcaa gtgaagacaa tgaaaacact
      841 gcagcttaga aaacaaaaag gcctccgtat aggaggcctt tttgtttaat gttcaatcct
      901 ggttaactga gtccccagcg cccttaaaca ttaaacgtaa agctttgtgt aatcctggtt
      961 aactgagtcc ccagcgccct tacacataac taaagttata ccttttcgta ttttttaaaa
     1021 gggcgcactg gtgtcactaa cgtagtgaca ctagtgtcac acaatgtata atcataatat
     1081 atatgaataa ccactcagcg gtgctttctt gccgcctcta tcttaagata gaggcggcaa
     1141 gaaagcaccg ctgagtggta tgcaccaatt ttttttcgaa aaaaaaagca ttttttagag
     1201 gggtgagcaa tgaaatcatc gtcgttgaac gaaaagtggg gagatgaagc gttaatcatg
     1261 ggatggacag caataccatc ttctttgcta atgctgcaaa aaacactagg gatcaactct
     1321 gttgcactga atgttctcct gaatttaact gccagttggt gggagacagc aaaaaaccca
     1381 tatccatcac aacaaacaat tgcagaacgt atgggaacat caaaacgaac agtgcaacgg
     1441 gccattagag aattagaaaa tctgagactg atcgaggtga agagaacgga aataacacac
     1501 ccgattttta aaggccgcaa catatacgat ctatcgccat tagttgaagt gctcataaag
     1561 ctaactccat cactaaaaca gctaaataga cctagcgctg atcacgattt accataacat
     1621 ccgttgcgtg caccgcctga gaggctctca gggcgtttct gggtcttcct gcctgtttcc
     1681 gacacttccc tgtgcctata tcgtgaaaaa acgcgcctga tgattctggc gcgtctgcat
     1741 ggctatgcac acacatgcat ggccgggatt ttagcggcta aaatccggct ggacgcccaa
     1801 aagcaccact gaacctcacg aataacgcct cacgggtgcg cagtttactg tgcggccgtg
     1861 aggcgttggc caggccgtca ggcatggctg gatttattgc taagggggtc ggatttaacg
     1921 tggatgaatc agcacgcagt gatgaacggg attcggaagg ggcacccttg cggcgcggcg
     1981 atgtatacat cgctaacgtg ccttggtcat ttattgcaag aagggagagg tagcattttg
     2041 atagcaaaaa agtagcaaaa ggatagcaac cgaaagacca gaagactctg gagatagcaa
     2101 aaaagtagca aaaagatagc aaaaagatag caaacatgcg ggagctaacc aggagtcttt
     2161 agcgggccgg cggtactcca aaaacacatc ttgtcccgct gttttgtgaa taagccagca
     2221 tagctgtggg cacaaaacat ttcctgtccg ctgctttaac ctttgtaatc caggaacgtc
     2281 aggtgacgtc actttgcggc gttagcccta tcctgcatcg tattaaaaaa tgcagctatg
     2341 gcgcgtacgg tgccaaagat aagcccggag atattccgct tcctcgctca ctgactcgct
     2401 ccgctcggtc gttcggctgc ggcgagcggt accggcttac tggcggggcg gatatttcct
     2461 ggcatcttcc aggaagaagc ttaacaggga agcaagaagg ccacggcgaa gccgtttttc
     2521 cataggctcc gcccccctga caagcatcac gaaatctgac gctcaaatca gtggtggcga
     2581 aacccgacag gacttaaaga taccaggcgt ttccccctgg tggctccctc gtgcgctctc
     2641 ctgttcctgc ctttcggttt accggtgtca ttccgctgtt atggccgcgt ttatctcatt
     2701 ccacgcctga cactcggttc cgggaaggca gttcgctcca agctggactg tatgcacgaa
     2761 ccccccgttc agtccgaccg ctgcgtcttt tccggtaact atcaacttg
//
