LOCUS       NZ_CP059008             3174 bp    DNA     circular CON 14-JUN-2023
DEFINITION  Escherichia coli strain 2D plasmid p2D-6, complete sequence.
ACCESSION   NZ_CP059008
VERSION     NZ_CP059008.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15502380
            Assembly: GCF_013425955.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3174)
  AUTHORS   Zheng,W.
  TITLE     Coexistence of two blaCTX-M-14 genes in a blaNDM-5-carrying
            multidrug-resistant Escherichia coli strain recovered from a
            bloodstream infection in China
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3174)
  AUTHORS   Zheng,W.
  TITLE     Direct Submission
  JOURNAL   Submitted (10-JUL-2020) 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 HiSeq; Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/14/2023 03:38:45
            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)                     :: 5,250
            CDSs (total)                      :: 5,134
            Genes (coding)                    :: 4,941
            CDSs (with protein)               :: 4,941
            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)              :: 193
            CDSs (without protein)            :: 193
            Pseudo Genes (ambiguous residues) :: 0 of 193
            Pseudo Genes (frameshifted)       :: 68 of 193
            Pseudo Genes (incomplete)         :: 129 of 193
            Pseudo Genes (internal stop)      :: 33 of 193
            Pseudo Genes (multiple problems)  :: 33 of 193
            Pseudo Genes (short protein)      :: 4 of 193
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP059008.1.
            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..3174
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="2D"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p2D-6"
                     /geo_loc_name="China: Yueqing"
                     /collection_date="2019-01-26"
                     /collected_by="Wei Zheng"
     gene            complement(join(3099..3174,1..353))
                     /locus_tag="H0E72_RS25955"
                     /old_locus_tag="H0E72_25950"
     CDS             complement(join(3099..3174,1..353))
                     /locus_tag="H0E72_RS25955"
                     /old_locus_tag="H0E72_25950"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000222531.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /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_000222531.1"
                     /translation="MTYSVKNKWKAGGLSLGWTAVPTVLFFIQNEKKLTSVAFNTLLNL
                     IVHWWSLQEWPHPSMESLAIRMGVSVRTVQRAINDLEKANLLDKKPTSKSDRRYGGRNI
                     YDLTKLVDYLDTMGPSVAEQVKKPRHKKPVYTVRKTTA"
                     /name="helix-turn-helix domain-containing protein"
     gene            511..681
                     /locus_tag="H0E72_RS25960"
                     /old_locus_tag="H0E72_25955"
     CDS             511..681
                     /locus_tag="H0E72_RS25960"
                     /old_locus_tag="H0E72_25955"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001531327.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001531327.1"
                     /translation="MKTEQRHDLVKDIEVFGVSLSLLISRANEKSVTMPSGLSREQRRA
                     WAAEQARKIHN"
                     /name="hypothetical protein"
     gene            645..1073
                     /locus_tag="H0E72_RS25965"
                     /old_locus_tag="H0E72_25960"
     CDS             645..1073
                     /locus_tag="H0E72_RS25965"
                     /old_locus_tag="H0E72_25960"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000534558.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000534558.1"
                     /translation="MGSGAGAQNPQLNIVSFSETFNLYYTSRYSAKTLDKIDDFIEHFE
                     KYNLFGDPLKGYPAWTGKVSPSWKVPDHYENKEAIEKYARANKLWHAHLGDPVFKDTFH
                     GKYKVSDWVIHFQRLTPNHIKLLELGYHDPMKLPQNFE"
                     /name="hypothetical protein"
     gene            complement(1289..1420)
                     /locus_tag="H0E72_RS25970"
                     /old_locus_tag="H0E72_25965"
     CDS             complement(1289..1420)
                     /locus_tag="H0E72_RS25970"
                     /old_locus_tag="H0E72_25965"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005019281.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_023151671.1"
                     /translation="MHEPPVQPDRCALSGNYRLESNPVRHDLTPLATATGKQDVREM"
                     /name="hypothetical protein"
     gene            complement(1909..2103)
                     /locus_tag="H0E72_RS25975"
                     /old_locus_tag="H0E72_25970"
     CDS             complement(1909..2103)
                     /locus_tag="H0E72_RS25975"
                     /old_locus_tag="H0E72_25970"
                     /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_001485273.1"
                     /translation="MNKQQQTVLNMAGFIKSQSLTLLEKLDALDADEQAAMCEKLHELA
                     EELQNSIQTRFEAENLTGI"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2387..2710
                     /gene="mobA"
                     /locus_tag="H0E72_RS25980"
                     /old_locus_tag="H0E72_25975"
     CDS             2387..2710
                     /gene="mobA"
                     /locus_tag="H0E72_RS25980"
                     /old_locus_tag="H0E72_25975"
                     /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_052584083.1"
                     /translation="MTKRSGSNTRRRAISRPVRLTAEEDQVIRKRAAECGKTVSGFLRA
                     AALGKKVNSLTDDRVLKEVMRLGALQKKLFIDGKRVGDREYAEVLIAITEYHRALLSRL
                     MAD"
                     /name="mobA"
     Typing          2139..2378
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="7.6e-123"
     Typing          complement(1349..1874)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.03"
                     /coverage="95.0"
                     /evalue="0.0"
     Typing          2388..2707
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.131"
                     /coverage="100.0"
                     /evalue="2.92e-61"
ORIGIN
        1 cccattgtat ctaggtagtc aactagcttt gttagatcat aaatattgcg accaccatat
       61 cggcgatcac tcttcgatgt tggtttcttg tccaagagat tagctttttc aagatcattg
      121 atagctctct gaacagtccg tacagaaacc cccatacgta tggctagact ttccattgac
      181 ggatgcggcc actcttgcaa actccaccag tgaacgatca ggttaagtag tgtgttaaag
      241 gccactgaag ttagcttttt ctcgttttgt ataaaaaaca atacggtagg cactgctgtc
      301 cagccaagag acaaaccgcc agctttccat ttattcttaa cggagtaagt cattgatttt
      361 cctaagcccc aaaatattta aagtatatat tatatggtat attcatatga atagggtgac
      421 actagcgcca ttattgtgca accaaaaaag actactctga aaacgaggaa aagatttttt
      481 cctgcctgaa ttagatacgg agttagcgat atgaaaaccg aacaacgtca tgatcttgtt
      541 aaagatattg aggtttttgg cgtatccttg tctctgttga tttccagagc gaatgagaag
      601 tctgttacaa tgccatctgg tctaagtcgg gagcagagaa gagcatgggc agcggagcag
      661 gcgcgcaaaa tccacaattg aatattgtct cattctctga gaccttcaac ctttattaca
      721 catccagata ttctgcaaaa acactcgata aaatcgatga tttcattgag cattttgaaa
      781 aatacaatct ctttggcgat cctttaaaag gatatccagc ttggactggc aaagtatcgc
      841 catcgtggaa agtgcctgat cattacgaaa acaaagaagc tattgagaag tatgctagag
      901 ctaacaaatt atggcatgct catttaggcg atccggtttt taaagatacg tttcatggga
      961 aatacaaggt ttctgactgg gttattcatt tccagcggct gacaccgaac catataaagc
     1021 ttttagagct tggataccat gacccaatga agctacctca aaactttgaa tgatcgagcg
     1081 gcaggctaaa tgaaatcttg agattcattc agtctcgtcg taatctcact attgtaaaaa
     1141 cgaaaaaacc accctggcag gtggtttttc gaaggttagt taatcctggc agattctcta
     1201 accgtggtaa cagtcttgtg cgagacatgt caccaaatac tgtcctttca gtgtagcctc
     1261 agttaggccg ccacttcaag aactctcgtt acatctctcg cacatcctgc ttaccagtgg
     1321 ccgttgccag tggcgttaag tcgtgtctta ccgggttgga ctcaagacga tagttaccgg
     1381 ataaggcgca gcggtcgggc tgaacggggg gttcgtgcac acagcccagc ttggagcgaa
     1441 cgacctacac cgaaccgaga taccaacagc gtgagctatg agaaagcgcc acgcttcccg
     1501 aagggagaaa ggcggacagg tatccggtaa gcggcagggt cggaacagga gagcgcacga
     1561 gggagcttcc agggggaaac gcctggtatc tttatagtcc tgtcgggttt cgccacctct
     1621 gacttgagcg tcggtttttg tgatgctcgt caggggggcg gagcctatgg aaaaacgcca
     1681 acggcgcggc ctttgtccct ggcttcggct ttttgctcac atgttctttc cggcgttatc
     1741 ccctgattct gtggataacc gtattaccgc ctttgagtga gctgacaccg ctcgccgcag
     1801 tcgaacgacc gagcgtagcg agtcagtgag cgaggaagcg gaagagcgcc ttatgtgaca
     1861 ttttctcctt acgctcctct atgccgttct gcatcctgtc cggatgcgtt atatcccggt
     1921 aagattttcc gcttcaaagc gtgtctgtat gctgttctga agttcttccg cgagttcgtg
     1981 cagcttctca cacatggcgg cctgttcgtc agcatcaagt gcgtccagtt tttcgagcag
     2041 cgtcaggctc tggcttttta tgaatcctgc catgttgagt acggtttgct gctgcttgtt
     2101 catctttctg ttttctccgt tctttctgtc atctgcgttg tgtgattata tcgcgtacca
     2161 cttttcgact gttttaccgt cggtattctg ctgtctgact ctttgacggg catttctgtc
     2221 agacaacact gtcactgcca aaaaactgcc gtgcctttgt cggtaattcg aacttgctga
     2281 caggacagga tgtgtaattg ttataccgcg catacatgca cgctattaca attaccctgg
     2341 tcagggcttt gccccgacac ccatgtcaga tacggagcca tgttttatga caaaacgaag
     2401 tggaagtaat acgcgcaggc gggctatcag tcgccctgtt cgtctgacgg cagaagaaga
     2461 ccaggtaatc agaaaaaggg ctgctgaatg cggcaagacc gtttccggtt ttttacgggc
     2521 ggcagctctc ggtaagaaag ttaactcact gactgatgat cgggtactga aagaagttat
     2581 gagactgggg gcgttacaga aaaaactctt tatcgacggc aagcgtgtcg gggacaggga
     2641 gtatgcggag gtgctgatcg ctattacgga gtatcaccgt gccctgttat ccaggcttat
     2701 ggcagattag cttcccggag agaaaactgt cgaaaactga cggtatgaac accgtaagct
     2761 cccaaagtga tcaccattcg ctttcatgca tagctatgca gcgagctgaa aacgatcctg
     2821 acgcatcctt cctgtttttc cggggtaaaa catctctttt tgcggtgtct gcgtcagaat
     2881 cgcgttcagc gcgtttcagt ggtgcgtaca attaagggat tatggtaaat atatgagcta
     2941 tgcgataact ttaactgtga agcgatgaac ccattacagg caaagccaat tactcctgac
     3001 agtggtttag ccagaagcag ggctaccaag accaatgcaa taagtaatat atcgttttgc
     3061 tatcgtgcat cgctcgcgct cagttccatt gtgctttttt aagctgtcgt ttttcttacg
     3121 gtatataccg gttttttatg gcgtggtttc ttaacttgtt cagctactga tgga
//
