LOCUS       NZ_CP086228             3374 bp    DNA     circular CON 21-MAY-2024
DEFINITION  Escherichia coli strain 779 plasmid p779-8, complete sequence.
ACCESSION   NZ_CP086228
VERSION     NZ_CP086228.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN22826253
            Assembly: GCF_023024425.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3374)
  AUTHORS   Bao,D., Xu,X., Wang,Y. and Zhu,F.
  TITLE     Emergence of a Multidrug-Resistant Escherichia coli Co-Carrying a
            New mcr-1.33 Variant and blaNDM-5 Genes Recovered from a Urinary
            Tract Infection
  JOURNAL   Infect Drug Resist 15, 1499-1503 (2022)
   PUBMED   35411158
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3374)
  AUTHORS   Bao,D.
  TITLE     Direct Submission
  JOURNAL   Submitted (01-NOV-2021) Department of Clinical Laboratory, Sanmen
            People's Hospital, Taihe Road, Taizhou, Zhejiang 317100, 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 :: Oxford Nanopore GridION; Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_023024425.1-RS_2024_05_21
            Annotation Date                   :: 05/21/2024 03:58:14
            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)                     :: 5,658
            CDSs (total)                      :: 5,531
            Genes (coding)                    :: 5,280
            CDSs (with protein)               :: 5,280
            Genes (RNA)                       :: 127
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 96
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 251
            CDSs (without protein)            :: 251
            Pseudo Genes (ambiguous residues) :: 0 of 251
            Pseudo Genes (frameshifted)       :: 87 of 251
            Pseudo Genes (incomplete)         :: 172 of 251
            Pseudo Genes (internal stop)      :: 48 of 251
            Pseudo Genes (multiple problems)  :: 49 of 251
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP086228.1.
            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..3374
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="779"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p779-8"
                     /geo_loc_name="China: Zhejiang"
                     /collection_date="2016-11-03"
                     /collected_by="Danni Bao"
     gene            join(3145..3374,1..94)
                     /locus_tag="LMB17_RS28180"
                     /old_locus_tag="LMB17_28185"
     CDS             join(3145..3374,1..94)
                     /locus_tag="LMB17_RS28180"
                     /old_locus_tag="LMB17_28185"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_001696562.1"
                     /translation="MLTIRVTDEEHARLLERCEGKRLAEWMRRVCLGEPVARTGKLPTL
                     APPLLRHLAAIGNNLNQTARKVNSGQWSSIDRVHVVAALMAIEGELRQLRQAVREQGVR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            303..>740
                     /locus_tag="LMB17_RS28185"
                     /pseudo=""
     CDS             303..>740
                     /locus_tag="LMB17_RS28185"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            772..1332
                     /locus_tag="LMB17_RS28190"
                     /old_locus_tag="LMB17_28195"
     CDS             772..1332
                     /locus_tag="LMB17_RS28190"
                     /old_locus_tag="LMB17_28195"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000067488.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_000067487.1"
                     /translation="MSNLLQMGTDFEKKLKERAASTENMLNSEFRKLEESVDKALSLNR
                     QKIRDAISEHTTSVKKQLDTLSTTVSMQFSTTEAELSRQQKKLLWRVIKGRILFPALTA
                     LSVTGGIFLGCWGLMEWQESKIAKNILTIREQENTLAKLEAKTWGVTFVNGENGKFLVL
                     PDGVKGENTWTVGDKNAVRLVRE"
                     /name="MbeB family mobilization protein"
     gene            1339..1572
                     /locus_tag="LMB17_RS28195"
                     /old_locus_tag="LMB17_28200"
     CDS             1339..1572
                     /locus_tag="LMB17_RS28195"
                     /old_locus_tag="LMB17_28200"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137389.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137389.1"
                     /translation="MTELEGHLLNALEHLQQDYMRRLNEWESAFAELQKMHEVTQRNNA
                     ILNERVVILSQQVQRLAGQVDRLSRLFIANNS"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(1787..2173)
                     /locus_tag="LMB17_RS28200"
                     /old_locus_tag="LMB17_28205"
     CDS             complement(1787..2173)
                     /locus_tag="LMB17_RS28200"
                     /old_locus_tag="LMB17_28205"
                     /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_247150874.1"
                     /translation="MKLSAPVAELSRVRSPSSQLPQPQTILANTQVSAKTGFFSGFLGD
                     CAVEKLLKNTEGSCKLNELVSVVDLNSFHRNIEEVRDLNEPETARLPGELFSFYAHRRK
                     IASAITRFFTSLRSKSKKTMFSPG"
                     /name="hypothetical protein"
     gene            complement(2890..3081)
                     /locus_tag="LMB17_RS28205"
                     /old_locus_tag="LMB17_28210"
     CDS             complement(2890..3081)
                     /locus_tag="LMB17_RS28205"
                     /old_locus_tag="LMB17_28210"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165979.1"
                     /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_062914769.1"
                     /translation="MTKQEKTALNMARFIRNQTLTLLEKLNDLDADEQADICESLHDHA
                     DELYRSCLARFGDDGESN"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          2726..2809
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="85.882"
                     /coverage="95.0"
                     /evalue="4.11e-16"
     Typing          85..1655
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.628"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ggttcatgtg gtggccgcac tgatggccat cgagggtgaa ttgcgccagt tgcggcaggc
       61 tgtcagggaa cagggggtac gggatgatag ttaaatttca tgccaggggg aaaggcggtg
      121 gaagtggccc ggtcgattac ctgctggggc gggagcgtaa ccgcgaaggc gcaacggtgc
      181 tccggggtaa cccggaagaa gtgcgggaac tcattgattc cacgccattt tcgaagaaat
      241 acacgtcagg cgttctgtcg ttcgcggaga aggagctacc accgggtgaa cgcgaaagag
      301 tgatgacgag ctttgagcgt gttcttatgc ccggtctcga aaaagaccag tacagcattc
      361 tctgggtgga acaccaggat aaggggcggc tcgaactgaa ttttgtcatc ccgaacatgg
      421 agctacagag cggtaagcgc ctccagccgt actacgaccg tgcggacagg ccgaggataa
      481 atgcctggca gacgctggtt aatcatcatt acgggctgcg tgacccgaac gcaccggaga
      541 acagacggac gcttgtcacg ccaaataatc tgccaaaagc gaaacaggag gccgcagaag
      601 cgattacacg gggtcttgag gctctttacc atgccggagc aataaaaacg cgtcaggatg
      661 tcacagaggc gcttacagcg gcaggttttg aggtggtgag gacaaccaaa agcagcatca
      721 gtattgccga cccggagggg gggcggaatc tcaggctaaa gggggcgctg tatgagcaat
      781 cttttacaaa tgggaacaga cttcgagaag aaactgaaag agcgagccgc ttctaccgag
      841 aacatgctga acagcgagtt caggaagctc gaagagtctg tagacaaggc attgagctta
      901 aacaggcaga aaatcagaga cgctatcagc gaacatacaa catccgtgaa aaagcaactg
      961 gatacgctga gcaccaccgt gagcatgcag ttcagcacca cagaggccga actgtcccgg
     1021 cagcagaaaa aactgctctg gcgggtgatc aaagggcgga tactgtttcc ggcgctgacc
     1081 gcgctcagcg tcacgggcgg gattttcctg gggtgctggg ggctgatgga gtggcaggaa
     1141 agcaagattg cgaaaaatat cctgactatc agagagcagg aaaacacgct ggcgaaactc
     1201 gaggcaaaaa cctggggggt gacgttcgtc aatggcgaga acgggaaatt tctggtgttg
     1261 ccggacgggg tgaaagggga aaacacctgg acggtgggcg acaagaacgc cgtgaggctg
     1321 gtcagggagt aaacgagtat gacggaactg gaagggcatt tgctgaacgc cttagagcat
     1381 ttgcaacagg actatatgcg gcggctgaac gagtgggaga gcgccttcgc ggaattgcag
     1441 aagatgcacg aggttacgca acggaacaac gcgatactga acgagcgcgt cgtgatattg
     1501 agtcagcagg tgcagagatt agccgggcaa gtggatcgct tgagtcggtt atttatcgcg
     1561 aacaacagct aagggatgaa caggagcgtg cccggtacag acatgaggta caggaacgcg
     1621 cggcacgggt tcggagtggg ccatcaatgg agatgtgacc ggagaagtga cgaaatcttg
     1681 ccattttgac ccgttcgacg gctggggcga gcgaaacaaa tcgtgtgccg tatttgtgca
     1741 tagctatgca acatcctgaa aacgcatttc acgcgttttt ggggattcag ccaggggaaa
     1801 acatggtttt tttacttttt gagcgtaaag acgtgaaaaa tctcgttatt gcacttgcga
     1861 tctttcgtcg gtgggcgtag aacgaaaaca gctcgccagg aaggcgagct gtttcgggtt
     1921 cattgaggtc tctgacctcc tcaatgttcc tgtggaaact gttgagatcc acaacagaaa
     1981 ccagttcatt cagtttgcat gagccttctg tattcttcaa gagtttttca acagcacagt
     2041 ctcccaggaa ccccgaaaaa aaacctgttt ttgcagatac ttgcgtattt gcgagaatcg
     2101 tttgcggttg ggggagctgt gacgacggcg accgcacgcg tgagagttcc gctaccggcg
     2161 cagagagttt catcgacagc ggacacctga tgagttgcca caaaaaccgt atgtagcgcg
     2221 gctagattgg ttgagttaga ccttggcggc agttcccggt atgtggtggc gtgacgggtg
     2281 agatggtgcg gcgaagacgc atacgtcacg caggcgcggg ttcttccact gacgcgcccc
     2341 gtgatcgatg gccttggctc cgtccggcat atcgagagcg gcaaactacc cgtcccttca
     2401 ctgggagggg tgagttgttg ccgttccctc cgaccttcca ccatccagca tatcgcacga
     2461 tcccatgtgc accgctactc ctgataactc cagtgcaaaa aaaaaaacgg atctgcatca
     2521 caacgagagt gatcccaccg ctcgccgcag ccccagcgac cgaacgtagt gagcgagtgg
     2581 gcgaggaagc ggaagagtca cagaggcaag cattgtgcac ttacgcgcct gtgccagtgt
     2641 ccgcgtgtgt gttgtttatc gggcgcgctg tttttacgca tctgtgcggc tttttactcc
     2701 tgacatggtg cacttcccat ccactctgca ccgatgcaaa atgaggaaag ccagtataca
     2761 catcgctatc gctctgtgaa ctgggtcagg gctgcgcccc gacacccgca ctgacgcgcc
     2821 ctggcgggct tgtctgctcc cggcatccgc tcacaggcaa gctgtgaacg tctccgggag
     2881 ctgcatgttt cagttgcttt caccgtcatc gccgaagcgt gcgaggcaac tgcggtagag
     2941 ttcgtcggcg tggtcgtgaa gtgattcgca gatgtctgcc tgttcgtccg cgtccagatc
     3001 gttgagtttt tccagcaggg ttagcgtctg gtttctgata aagcgagcca tgttaagggc
     3061 tgttttttcc tgtttggtca tggtcttaag gctccttgta tgggggattt gttaggggga
     3121 atgataccga tgaaacgcga gaagatgctc acgatacggg ttaccgatga ggagcacgcc
     3181 cggttactgg aacgctgcga gggtaaacga ctggcggaat ggatgcggcg ggtctgtctg
     3241 ggggagccgg ttgcacgcac aggaaaactg ccgacactgg caccgccatt gctgcggcat
     3301 ctggctgcca tcgggaacaa cctgaaccag acagcccgga aggtgaacag cggccagtgg
     3361 tcttcgattg accg
//
