LOCUS       NZ_CP085079             3174 bp    DNA     circular CON 22-NOV-2023
DEFINITION  Escherichia coli strain P21_SE1_04.20 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP085079
VERSION     NZ_CP085079.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN22252057
            Assembly: GCF_020541025.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3174)
  AUTHORS   Turton,J.F. and Turton,J.A.
  TITLE     Wide distribution of IncF plasmids carrying blaNDM-5 and rmtB in
            Escherichia coli from hospitals in England similar to those found in
            other countries and continents
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3174)
  AUTHORS   Turton,J.F. and Turton,J.A.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-OCT-2021) HCAI, Fungal, AMR, AMU & Sepsis Division,
            United Kingdom Health Security Agency, 61 Colindale Avenue, London,
            London NW9 5EQ, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 05-OCT-2021
            Assembly Method                   :: Unicycler v. 0.4.9
            Assembly Name                     :: RR20_BC11_Ecol_P21_SE1_04.20
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 680.0x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/22/2023 14:30:59
            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)                     :: 5,179
            CDSs (total)                      :: 5,059
            Genes (coding)                    :: 4,774
            CDSs (with protein)               :: 4,774
            Genes (RNA)                       :: 120
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 285
            CDSs (without protein)            :: 285
            Pseudo Genes (ambiguous residues) :: 0 of 285
            Pseudo Genes (frameshifted)       :: 87 of 285
            Pseudo Genes (incomplete)         :: 197 of 285
            Pseudo Genes (internal stop)      :: 57 of 285
            Pseudo Genes (multiple problems)  :: 52 of 285
            Pseudo Genes (short protein)      :: 4 of 285
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP085079.1.
            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="P21_SE1_04.20"
                     /isolation_source="sputum"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="unnamed3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2020-04"
                     /genotype="ST1702"
     gene            complement(join(2886..3174,1..140))
                     /locus_tag="LH372_RS25710"
                     /old_locus_tag="LH372_25710"
     CDS             complement(join(2886..3174,1..140))
                     /locus_tag="LH372_RS25710"
                     /old_locus_tag="LH372_25710"
                     /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            298..468
                     /locus_tag="LH372_RS25715"
                     /old_locus_tag="LH372_25715"
     CDS             298..468
                     /locus_tag="LH372_RS25715"
                     /old_locus_tag="LH372_25715"
                     /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            432..860
                     /locus_tag="LH372_RS25720"
                     /old_locus_tag="LH372_25720"
     CDS             432..860
                     /locus_tag="LH372_RS25720"
                     /old_locus_tag="LH372_25720"
                     /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(1696..1890)
                     /locus_tag="LH372_RS25725"
                     /old_locus_tag="LH372_25725"
     CDS             complement(1696..1890)
                     /locus_tag="LH372_RS25725"
                     /old_locus_tag="LH372_25725"
                     /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            2174..2497
                     /gene="mobA"
                     /locus_tag="LH372_RS25730"
                     /old_locus_tag="LH372_25730"
     CDS             2174..2497
                     /gene="mobA"
                     /locus_tag="LH372_RS25730"
                     /old_locus_tag="LH372_25730"
                     /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          1926..2165
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="7.6e-123"
     Typing          complement(1136..1661)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.03"
                     /coverage="95.0"
                     /evalue="0.0"
     Typing          2175..2494
                     /name="MOBF"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.131"
                     /coverage="100.0"
                     /evalue="2.92e-61"
ORIGIN
        1 acgatcaggt taagtagtgt gttaaaggcc actgaagtta gctttttctc gttttgtata
       61 aaaaacaata cggtaggcac tgctgtccag ccaagagaca aaccgccagc tttccattta
      121 ttcttaacgg agtaagtcat tgattttcct aagccccaaa atatttaaag tatatattat
      181 atggtatatt catatgaata gggtgacact agcgccatta ttgtgcaacc aaaaaagact
      241 actctgaaaa cgaggaaaag attttttcct gcctgaatta gatacggagt tagcgatatg
      301 aaaaccgaac aacgtcatga tcttgttaaa gatattgagg tttttggcgt atccttgtct
      361 ctgttgattt ccagagcgaa tgagaagtct gttacaatgc catctggtct aagtcgggag
      421 cagagaagag catgggcagc ggagcaggcg cgcaaaatcc acaattgaat attgtctcat
      481 tctctgagac cttcaacctt tattacacat ccagatattc tgcaaaaaca ctcgataaaa
      541 tcgatgattt cattgagcat tttgaaaaat acaatctctt tggcgatcct ttaaaaggat
      601 atccagcttg gactggcaaa gtatcgccat cgtggaaagt gcctgatcat tacgaaaaca
      661 aagaagctat tgagaagtat gctagagcta acaaattatg gcatgctcat ttaggcgatc
      721 cggtttttaa agatacgttt catgggaaat acaaggtttc tgactgggtt attcatttcc
      781 agcggctgac accgaaccat ataaagcttt tagagcttgg ataccatgac ccaatgaagc
      841 tacctcaaaa ctttgaatga tcgagcggca ggctaaatga aatcttgaga ttcattcagt
      901 ctcgtcgtaa tctcactatt gtaaaaacga aaaaaccacc ctggcaggtg gtttttcgaa
      961 ggttagttaa tcctggcaga ttctctaacc gtggtaacag tcttgtgcga gacatgtcac
     1021 caaatactgt cctttcagtg tagcctcagt taggccgcca cttcaagaac tctcgttaca
     1081 tctctcgcac atcctgctta ccagtggccg ttgccagtgg cgttaagtcg tgtcttaccg
     1141 ggttggactc aagacgatag ttaccggata aggcgcagcg gtcgggctga acggggggtt
     1201 cgtgcacaca gcccagcttg gagcgaacga cctacaccga accgagatac caacagcgtg
     1261 agctatgaga aagcgccacg cttcccgaag ggagaaaggc ggacaggtat ccggtaagcg
     1321 gcagggtcgg aacaggagag cgcacgaggg agcttccagg gggaaacgcc tggtatcttt
     1381 atagtcctgt cgggtttcgc cacctctgac ttgagcgtcg gtttttgtga tgctcgtcag
     1441 gggggcggag cctatggaaa aacgccaacg gcgcggcctt tgtccctggc ttcggctttt
     1501 tgctcacatg ttctttccgg cgttatcccc tgattctgtg gataaccgta ttaccgcctt
     1561 tgagtgagct gacaccgctc gccgcagtcg aacgaccgag cgtagcgagt cagtgagcga
     1621 ggaagcggaa gagcgcctta tgtgacattt tctccttacg ctcctctatg ccgttctgca
     1681 tcctgtccgg atgcgttata tcccggtaag attttccgct tcaaagcgtg tctgtatgct
     1741 gttctgaagt tcttccgcga gttcgtgcag cttctcacac atggcggcct gttcgtcagc
     1801 atcaagtgcg tccagttttt cgagcagcgt caggctctgg ctttttatga atcctgccat
     1861 gttgagtacg gtttgctgct gcttgttcat ctttctgttt tctccgttct ttctgtcatc
     1921 tgcgttgtgt gattatatcg cgtaccactt ttcgactgtt ttaccgtcgg tattctgctg
     1981 tctgactctt tgacgggcat ttctgtcaga caacactgtc actgccaaaa aactgccgtg
     2041 cctttgtcgg taattcgaac ttgctgacag gacaggatgt gtaattgtta taccgcgcat
     2101 acatgcacgc tattacaatt accctggtca gggctttgcc ccgacaccca tgtcagatac
     2161 ggagccatgt tttatgacaa aacgaagtgg aagtaatacg cgcaggcggg ctatcagtcg
     2221 ccctgttcgt ctgacggcag aagaagacca ggtaatcaga aaaagggctg ctgaatgcgg
     2281 caagaccgtt tccggttttt tacgggcggc agctctcggt aagaaagtta actcactgac
     2341 tgatgatcgg gtactgaaag aagttatgag actgggggcg ttacagaaaa aactctttat
     2401 cgacggcaag cgtgtcgggg acagggagta tgcggaggtg ctgatcgcta ttacggagta
     2461 tcaccgtgcc ctgttatcca ggcttatggc agattagctt cccggagaga aaactgtcga
     2521 aaactgacgg tatgaacacc gtaagctccc aaagtgatca ccattcgctt tcatgcatag
     2581 ctatgcagcg agctgaaaac gatcctgacg catccttcct gtttttccgg ggtaaaacat
     2641 ctctttttgc ggtgtctgcg tcagaatcgc gttcagcgcg tttcagtggt gcgtacaatt
     2701 aagggattat ggtaaatata tgagctatgc gataacttta actgtgaagc gatgaaccca
     2761 ttacaggcaa agccaattac tcctgacagt ggtttagcca gaagcagggc taccaagacc
     2821 aatgcaataa gtaatatatc gttttgctat cgtgcatcgc tcgcgctcag ttccattgtg
     2881 cttttttaag ctgtcgtttt tcttacggta tataccggtt ttttatggcg tggtttctta
     2941 acttgttcag ctactgatgg acccattgta tctaggtagt caactagctt tgttagatca
     3001 taaatattgc gaccaccata tcggcgatca ctcttcgatg ttggtttctt gtccaagaga
     3061 ttagcttttt caagatcatt gatagctctc tgaacagtcc gtacagaaac ccccatacgt
     3121 atggctagac tttccattga cggatgcggc cactcttgca aactccacca gtga
//
