LOCUS       NZ_CP043038             4234 bp    DNA     circular CON 26-APR-2024
DEFINITION  Escherichia coli strain XDL plasmid pXDL-5, complete sequence.
ACCESSION   NZ_CP043038
VERSION     NZ_CP043038.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN10691120
            Assembly: GCF_008949495.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4234)
  AUTHORS   Cui,Y., Quan,J., Liao,W., Zhao,D., Jiang,Y., Du,X., Zhao,F. and
            Yu,Y.
  TITLE     A new variant of mcr-1 identified from an extended-spectrum beta
            lactamase-producing Escherichia coli
  JOURNAL   J Glob Antimicrob Resist 18, 26-27 (2019)
   PUBMED   31154009
REFERENCE   2  (bases 1 to 4234)
  AUTHORS   Quan,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-AUG-2019) Infectious Diseases, Sir Run Run Shaw
            Hospital, 3# East Qingchun Road, Hangzhou, Zhejiang 310016, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology             :: PacBio RSII
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_008949495.1-RS_2024_04_26
            Annotation Date                   :: 04/26/2024 04:03:38
            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)                     :: 5,378
            CDSs (total)                      :: 5,262
            Genes (coding)                    :: 5,025
            CDSs (with protein)               :: 5,025
            Genes (RNA)                       :: 116
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 237
            CDSs (without protein)            :: 237
            Pseudo Genes (ambiguous residues) :: 0 of 237
            Pseudo Genes (frameshifted)       :: 105 of 237
            Pseudo Genes (incomplete)         :: 159 of 237
            Pseudo Genes (internal stop)      :: 51 of 237
            Pseudo Genes (multiple problems)  :: 65 of 237
            Pseudo Genes (short protein)      :: 4 of 237
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP043038.1.
            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..4234
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="XDL"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pXDL-5"
                     /geo_loc_name="China: Hangzhou"
                     /lat_lon="30.3 N 120.2 E"
                     /collection_date="2017-09-20"
                     /collected_by="Feng Zhao"
     gene            complement(join(2205..4234,1..190))
                     /gene="mobQ"
                     /locus_tag="EOV66_RS27280"
                     /old_locus_tag="EOV66_27295"
     CDS             complement(join(2205..4234,1..190))
                     /gene="mobQ"
                     /locus_tag="EOV66_RS27280"
                     /old_locus_tag="EOV66_27295"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001029330.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_151577630.1"
                     /translation="MAIYHLSMKIISRKNGYSAVASAAYRSGSVIPDDRTGLIHDYTRK
                     RGVDDAVILTPANAPSWCGDRSVLWNAVEKAEQRRNSQLAREIELAIPREISREAAREA
                     VLAFVRENFVSRGMIADVAFHHMDRTNPHAHIMLTTRAVGETGFAGKVRDWNDRALAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKAPGLHLGKAACAMEKRGMETERGEQ
                     NRLINSLNLEIQVSRTRLAVIQVQENVRKRELSDAARRAAEALNLTIPAANASADTLRE
                     FIATLPQECGNAWEMTPEFVAMNGKANDIKREGNALVKERDILEKEMTGLRKARPVASI
                     LSELPLMTWAEPEYRKRQLRFWKLEKQIESLLRTYRAVKERDIPVRRQAFETQWNTWIS
                     PGMAELKEKLSAREAERRREEAEAEARRKEQEYDARLKHHDNHRLSRETALAGVITELG
                     RAREPGTGRITRYMMLSNRAGEFTVWGDELAHYPQSVHDPVNVYLSPGGAVMVSDIREG
                     MPESHETMARPERVRMYSGATVRHVLEQMRQGWPSYGFPALPHHWPDNFYFSDDRRPAA
                     SPLPSAHRVDVTAYAAPEQLMPVVFSTERNSRTLNLLLCKGPEEMLVGFVRLEDELRPV
                     LALPSPDYSHLMVSIITENGIHLAGYGEAINRDADTPYPPEPKLMQFRLKGCQDTLFAA
                     INKPEEMPDYLFRQLGFNQTWHEWKRDEQHRQQQRRPGHFRGMSM"
                     /name="mobQ"
     gene            369..644
                     /locus_tag="EOV66_RS27285"
                     /old_locus_tag="EOV66_27300"
     CDS             369..644
                     /locus_tag="EOV66_RS27285"
                     /old_locus_tag="EOV66_27300"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091757.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_052995416.1"
                     /translation="MSRTLEQKIAEAEARLQRLKAKSRSLDTAQKVIVGAAMLARVRRP
                     EEAQLRAFLLQFLRKEVTRQADVNRLQPLINELEKLPRPPAKPQNG"
                     /name="hypothetical protein"
     gene            complement(850..1758)
                     /locus_tag="EOV66_RS27295"
                     /old_locus_tag="EOV66_27310"
     CDS             complement(850..1758)
                     /locus_tag="EOV66_RS27295"
                     /old_locus_tag="EOV66_27310"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009440807.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_058657849.1"
                     /translation="MSAALQYFEENLPHRPYHTDDPAFGLRISGKGRALLARYIQQNQP
                     HAQHWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNLAVRTAPDASVKV
                     LKYAAAIERALCEKLDADVNYSGLICKNPFHLEWQVMEWREEAYTLDELADYLDLSASE
                     RRSVDKHYGLGRNCHLFEITRKWAYRAIRQGWPAFSQWLDAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRKFSPEGFSAVQAARGRKGGLAKGEAYEDKRFMALCMLENGYSQ
                     KAIAAMLDVHRNTIRNWAMHK"
                     /name="replication initiation protein"
     Typing          2..191
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="7.379999999999999e-95"
     Typing          192..362
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.512"
                     /coverage="97.0"
                     /evalue="1.23e-74"
     Typing          4067..4234
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="1.25e-82"
     Typing          complement(1031..1758)
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.376"
                     /coverage="94.0"
                     /evalue="0.0"
     Typing          complement(2209..4232)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.593"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cacaccagga cggtgcattc gcaggggtga gaatgaccgc atcatcaacg ccgcgtttac
       61 gggtgtaatc gtggattaat ccggtacggt catcgggtat gacagagccg gaacggtagg
      121 cagcagaagc aacggcactg tagccgtttt ttcgcgaaat gattttcatg ctgagatgat
      181 aaatcgccat ttctgccgta atgccttttt gccgttttct ttcagccccg cagggcgcac
      241 acaatcgaaa cgaagtgaag attgtataag tgcgcacttc gtgatatgcc gtgcattatg
      301 ccagctcagt ttttaaacta ccagtgacga gctaaaatgc gatttttcac cgcgcaagga
      361 gtcacgaaat gagcagaaca ctcgaacaga agattgctga agctgaggcc agattgcagc
      421 gcctgaaggc gaagagccgg agcctggaca ctgcgcaaaa agtcattgtg ggagcagcca
      481 tgctggcgag ggtacggagg ccggaagagg cgcaactgcg tgcgttcctg ctccagttcc
      541 tgcgaaagga agtcacaaga caggccgatg tgaaccggct acaaccactg attaacgagc
      601 tggagaagct accaagacca cctgcgaaac cgcagaacgg ataagccccg gcgcgtaagt
      661 gccacatgca ccaccggacg cctttgcgct tcctcgcaca ttcgctcgct acgctcggtc
      721 atgaggctgc ggcgagcgct accaccgcaa tcacgaggaa accagcgcca ttgctgggcg
      781 gaaccggaaa aaccgcagga acgccaacag ctcaaaaaag cgccgaaaag gcgctgttat
      841 ctgataaggc tatttgtgca ttgcccaatt acggatcgta tttcgatgta catccagcat
      901 cgccgcaata gctttctgag aatatccatt ctccagcata catagcgcca tgaaacgctt
      961 gtcctcgtag gcttcgcctt tagcaaggcc acctttccgg cctcgagcgg cctgtacagc
     1021 ggaaaagcct tccggtgaga attttctgtg cgtgtatttc gcaatgctct tgccaatagc
     1081 ccggcattca gccagtgaaa gaggaacggg aagcgatgcg ttgtacattt cgacacgctg
     1141 gatcacggca tcaagccact gtgagaatgc tggccatccc tgacgaatcg ctctgtaagc
     1201 ccatttacgc gttatttcga acaggtggca gtttcgcccc agcccgtaat gtttatcgac
     1261 gctacgacgc tctgaggcgc tcaaatcgag ataatcagcc agttcatcga gggtataggc
     1321 ttcctcgcgc cactccatca cctgccattc caggtggaac ggatttttgc aaatcagtcc
     1381 gctgtagttc acatctgcgt caagtttctc acacagcgca cgttcaattg cagcggcgta
     1441 tttcagcacc ttaaccgacg catcaggcgc ggttctcacg gcaagattga gcgcgtatag
     1501 caggtgagcg tgcccattca cgggattttt tacggtgatg ttcggcgcgg gggcgttccg
     1561 gtcgctccag tcaatcgcag ccccctcgcg gtcaacgtca aaaaccagcc agtgttgcgc
     1621 atgtggctgg ttctgctgaa tgtaccgcgc aagaagcgca cgccctttgc cggagatgcg
     1681 aaggccgaaa gcgggatcat ccgtgtgata gggacggtga ggtaaatttt cttcgaagta
     1741 ttgaagcgcg gcgctcatgt gttacgattc cttccaggtt atcgaccgac atcgcccctg
     1801 tatcttcgtg aaagtcttgg cggatctaca cgaatttcag gggcgtttgt ttttcagtcg
     1861 cttacactac acccaacggc aaatcctgtc gatccttccc gaaaaaccga tccatttacc
     1921 ataactcctg ttgtacgtac cccttaaaac gctctcagac gcgttctgac gcaaaaaaca
     1981 caaaaagaca agaaaacacc aggccaaacc agaaaaacgc gtcagaatcg ttttcagggg
     2041 tctgcataac tattcacgaa agcgatgcgc gatcggtttc gaccgttcag aagcgcgaac
     2101 gggtcaaaac ggcaaacttt ctcatccaga aaacgcctca cgggacgcgg aattttttcg
     2161 tgtcccgtga gacgttggcg gggttcgggg tgcagccccg gatatcacat actcatgccc
     2221 cggaagtgcc cgggacgtcg ttgttgttgc ctgtgctgtt cgtcccgctt ccattcatgc
     2281 caggtctgat taaatccgag ttgacggaag agataatccg gcatctcttc cggtttgttg
     2341 atggcagcaa aaagcgtgtc ctgacagccc ttaagcctga actgcatcag cttcggttcc
     2401 ggtgggtacg gagtatcagc atcacggttt atggcctcac cgtagcctgc caggtgtatc
     2461 ccgttctctg tgatgatgct taccatcaga tgactgtaat ccggcgacgg aagcgcaaga
     2521 acgggacgca gctcgtcctc caggcgcaca aaaccgacaa gcatttcctc cggccctttg
     2581 cacaacagca gattcagcgt cctgctgttt cgctctgtcg aaaagacaac gggcatgagt
     2641 tgctccggtg ccgcataagc ggtgacgtcc acccggtgcg ctgacggcag cggagaggct
     2701 gcgggcctgc ggtcgtcgct gaaataaaaa ttatccggcc agtgatgcgg cagcgccgga
     2761 aaaccgtaag agggccaccc ctggcgcatc tgttccagta catgccggac cgtcgcaccg
     2821 gaatacattc tcacacgctc aggccgcgcc atcgtctcat gagattctgg cattccctca
     2881 cgtatatccg agaccatcac agccccgcct ggcgacaggt aaacattcac cgggtcatga
     2941 acactctggg ggtaatgcgc cagctcatca ccccataccg tgaattctcc ggctctgtta
     3001 ctcagcatca tgtagcgggt tatcctgccc gttcccggct ctctggcacg ccccagctcc
     3061 gtaataaccc cggctaatgc cgtttctcgg ctcaggcgat ggttatcatg gtgtttcagc
     3121 cgtgcgtcat attcctgttc cttccggcgc gcttccgctt cggcttcctc cctgcgccgc
     3181 tccgcttccc gtgctgacag tttttctttc agctctgcca ttcccggcga aatccacgta
     3241 ttccactgcg tttcaaaggc ctgacgacgg acgggaatgt cccgttcttt cacggccctg
     3301 taggtgcgga gaagagattc aatctgtttc tcgagtttcc agaagcggag ttgtcttttg
     3361 cggtattccg gttcagccca tgtcatcagg ggaagctctg acaggatgga cgctaccgga
     3421 cgggcttttc tgagtccggt catctctttt tcgagaatat cccgctcttt caccagcgca
     3481 ttcccctcac gtttgatgtc gtttgccttc ccgttcatcg ccacgaactc cggtgtcatc
     3541 tcccatgcgt tcccgcattc ctgcggcagt gtggcaatga attcccgcag ggtatccgct
     3601 gaggcattcg cggcgggaat ggtcagatta agggcttccg ctgcacgacg tgcggcatcg
     3661 ctgagttccc gtttccgcac gttctcctgt acctggatga ctgccagcct tgtgcgggaa
     3721 acctgtattt ccaggttaag gctgttaatc aggcggttct gctcaccgcg ttctgtttcc
     3781 atgccccgtt tttccatcgc acaggcagcc tttccgaggt gaaggcccgg cgctttctcc
     3841 agtccctgac gctcgtatga acgatggtct atctcttcct ggtagccggc gttcgcaagc
     3901 gctctgttcg catggtcagc ccatgatgcg cgccacgtct cggcgagtgc ccggtcgttc
     3961 cagtccctga cctttcctgc gaatcccgtt tccccgacag ctctcgtggt cagcatgatg
     4021 tgtgcatggg ggttggtccg gtccatatga tggaacgcca catcggcaat catgccccga
     4081 ctgacaaagt tttcccggac aaaagcgaga acggcctccc gtgcggcctc gcgggaaatc
     4141 tcacggggaa tggcgagttc aatctccctt gccagctggg agttccggcg ctgttcggct
     4201 ttctcgaccg cattccagag aacggaacgg tcac
//
