LOCUS       NZ_CP090461             2508 bp    DNA     circular CON 08-DEC-2023
DEFINITION  Escherichia coli strain B379 plasmid pB379_5, complete sequence.
ACCESSION   NZ_CP090461
VERSION     NZ_CP090461.1
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 2508)
  AUTHORS   Yue,M.
  TITLE     Complete genome sequence of a Escherichia coli B379 carrying the
            blaNDM-5 gene
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2508)
  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
            CP090461.1.
            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..2508
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="B379"
                     /isolation_source="Pus"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pB379_5"
                     /geo_loc_name="China: Hangzhou"
                     /collection_date="2021-08-02"
                     /collected_by="Meina Yue"
     gene            complement(678..1154)
                     /locus_tag="LZ684_RS25015"
                     /old_locus_tag="LZ684_25015"
     CDS             complement(678..1154)
                     /locus_tag="LZ684_RS25015"
                     /old_locus_tag="LZ684_25015"
                     /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_140430263.1"
                     /translation="MAVKKHTTLASLMLATFIFSISSYADSVFFTEKYSKISNGIQKKL
                     ESCQNIAIDGYSYSDCISSAIDDEDKYLGFLRAEIKQNIKNNNLILSEFDRDINCNENI
                     KNTILNNNGSMWPGVAMEYCAVSKDAALKKWSYFYDVMKGSEQYENNLKGIFNE"
                     /name="hypothetical protein"
     gene            1353..1883
                     /locus_tag="LZ684_RS25020"
                     /old_locus_tag="LZ684_25020"
     CDS             1353..1883
                     /locus_tag="LZ684_RS25020"
                     /old_locus_tag="LZ684_25020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001556731.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication/maintenance protein RepL"
                     /protein_id="WP_095530621.1"
                     /translation="MSAVVSSRETNESHSENDNSNFVQLSRGYLQQMRKLARKSPIAHE
                     ILYYLVEHMGRTTNAVVCSYTTLCEVTGVSRPTVGRAIKLLKEDNWIDTVKIGNANAYC
                     VNERVFWQAGRNQRKYAIFSATVIASASEQENDYVEKAKQKMTYIPIIESKDIPVTGCE
                     ELPPPDQGDLPLY"
                     /name="replication/maintenance protein RepL"
     gene            complement(2151..2435)
                     /locus_tag="LZ684_RS25025"
                     /old_locus_tag="LZ684_25025"
     CDS             complement(2151..2435)
                     /locus_tag="LZ684_RS25025"
                     /old_locus_tag="LZ684_25025"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001614212.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_234679459.1"
                     /translation="MITDTSKLYDDDDELWIKNFLEYIEHDDGVAAKESLMKGVSIYYA
                     EPDTPENCVIKEYPDGRKELVSFMTGKEIPVPPPDLEVDDSTYRTGFFL"
                     /name="hypothetical protein"
ORIGIN
        1 gtcgttcgag cagcaagctg ccataacggc acggttccgg tagcgccttg agcgctgccg
       61 gaaccgttcg ggggcacgcc cccaaccccc cgcatcgctg taacaccgac ggtctacgac
      121 cacccaccga ccgcggggcg gccagtcccg tgcggttagg cttagcaggg gcgcggggcg
      181 ctgtcccgta gttccggtaa cgaccgtaac ccgctggcgc ggggcttcgg cgcgctaggc
      241 ctcctgagag cctctgtaag cacttttcgc gccttccatg ccctaacggg catttaaaac
      301 ccgtttcgtg cgtctgagag cttctgagcg cgtctgaggg gctatctggc gaccctcccc
      361 gaaagaacaa caacggaatc gccgacaaca cgagagagct gacaccgctc gccgcagccc
      421 cagcgaccga acgtagtgag cgagcgggcg aggaagcgga atttccactt cccgaacata
      481 gaaatcctta cgctcggaac tggcagaaaa actcctgatt tttcgaatgt gcgaacgttg
      541 gggagtaata agatacagaa ggggatctct cggaagccgc gccacaagcg gaaagttttt
      601 gacaatagtt atcttgagag ataactattt ttcctgaaat tggagatttt tagatgcgga
      661 gaatttagag ttaaatatta ttcattaaaa attcctttta ggttattttc atactgttcg
      721 gaacccttca tgacatcata aaaatacgac cattttttca atgcagcatc tttactgact
      781 gcacaatatt ccatagcaac accaggccac atagatccat tattattaag tattgtattt
      841 tttatgtttt cattgcaatt aatgtcacga tcaaattcgc ttaagataag gttgttattt
      901 tttatatttt gctttatctc agcacggagg aatcctagat atttatcctc atcatcaata
      961 gcactagata tgcaatcact atagctataa ccatctatag ctatgttttg acagctttct
     1021 agtttttttt gtattccgtt gcttatcttt gagtatttct cggtaaaaaa tacagaatca
     1081 gcatacgacg aaatgctaaa aatgaatgta gctagcatca agctggctag ggttgtgtgt
     1141 tttttaaccg ccacacgaag caccatgtag acccctaatt tagatataga aaggaacaaa
     1201 tcgcaaccaa ttgatattta aatcatatca tagaagggta gtctcatcag ctatgagact
     1261 catgagtctc atagctgatg agactaccct ttacaaccta gctcatgata tgataaaacc
     1321 acaatcaaat atgacacgaa gggcttaact ctatgagcgc agttgtatca tctcgtgaga
     1381 ctaatgagtc tcacagtgaa aatgataatt ctaactttgt gcagctttct cgtggctacc
     1441 ttcaacagat gcgtaagtta gctcgtaaaa gccccatagc gcacgaaatt ctgtattacc
     1501 tagtggagca catgggtaga actacaaacg ctgttgtgtg cagttataca actctatgtg
     1561 aggttactgg tgttagccga ccaactgttg gaagagcaat aaagcttctt aaagaggata
     1621 attggataga cacagtgaag atcggcaatg ccaatgctta ttgcgttaac gagagggtat
     1681 tttggcaggc ggggagaaac caaaggaaat acgctatttt ctctgcaact gtaattgcgt
     1741 cagcttcaga acaagaaaac gattacgtcg aaaaagcaaa acagaagatg acatacattc
     1801 cgattattga atctaaggac attcctgtta ctggatgcga agagcttcca ccaccagatc
     1861 agggtgatct tccattatat taaaaaaggt ttaacgcccc cgttccctgc ctgtgtgctg
     1921 gcggtctttc ttcgtcttat ccctgaactg gttattttcg gatgcagctg tgtgtggcgg
     1981 tactccaaaa acacatcttg tctggtacac agatttcctt tggcattcct tcgggtttcc
     2041 ctgagatttc cactctgcat gtacacacgt atacacgcat aaccagcggc aaagttaggg
     2101 caggacatgt aaagttagcc aactttacgc ctgccttatt cgcgtcccgc tcaaaggaaa
     2161 aaccccgttc tataggttga atcgtcaact tctaaatcgg gggggggtac tggtatttct
     2221 tttcccgtca tgaaacttac cagctcttta cgcccgtcag gatattcttt gataacacaa
     2281 ttttctgggg tgtcaggttc tgcgtagtag atggatacgc ctttcataag actttctttc
     2341 gctgctaccc catcatcatg ttcaatgtat tccagaaagt ttttaatcca taattcatca
     2401 tcatcgtcgt acagtttaga tgtatcagta atcatttggt ttcctcggct tttggcgata
     2461 catgacctgc gtgatttgga gtgtgcactc tagactttgc tatgcaaa
//
