LOCUS       NZ_CP091761             3183 bp    DNA     circular CON 26-JUL-2023
DEFINITION  Escherichia coli strain LC-1302-2020 plasmid p5-LC-1302-2020,
            complete sequence.
ACCESSION   NZ_CP091761
VERSION     NZ_CP091761.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN25301092
            Assembly: GCF_022559875.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 3183)
  AUTHORS   Campos-Madueno,E.I., Mauri,C., Meroni,E., Paseiro,P.P., Consonni,A.,
            Luzzaro,F. and Endimiani,A.
  TITLE     Simultaneous gut colonization by Klebsiella grimontii and
            Escherichia coli co-possessing the blaKPC-3-carrying pQil plasmid
  JOURNAL   Eur J Clin Microbiol Infect Dis 41 (7), 1087-1091 (2022)
   PUBMED   35643963
REFERENCE   2  (bases 1 to 3183)
  AUTHORS   Campos-Madueno,E.I. and Endimiani,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (27-JAN-2022) Institute for Infectious Diseases,
            University of Bern, Friedbuehlstrasse 51, Bern 3001, Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 339.6778x
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/26/2023 04:10:24
            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)                     :: 5,269
            CDSs (total)                      :: 5,144
            Genes (coding)                    :: 4,882
            CDSs (with protein)               :: 4,882
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 262
            CDSs (without protein)            :: 262
            Pseudo Genes (ambiguous residues) :: 0 of 262
            Pseudo Genes (frameshifted)       :: 80 of 262
            Pseudo Genes (incomplete)         :: 189 of 262
            Pseudo Genes (internal stop)      :: 40 of 262
            Pseudo Genes (multiple problems)  :: 46 of 262
            Pseudo Genes (short protein)      :: 4 of 262
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP091761.1.
            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..3183
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="LC-1302-2020"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p5-LC-1302-2020"
                     /geo_loc_name="Italy"
                     /lat_lon="45.8523 N 9.4144 E"
                     /collection_date="2020-11-09"
                     /collected_by="Clinical Microbiology and Virology Unit, A.
                     Manzoni Hospital, Lecco, Italy"
     gene            46..513
                     /locus_tag="L6507_RS26200"
                     /old_locus_tag="L6507_26200"
     CDS             46..513
                     /locus_tag="L6507_RS26200"
                     /old_locus_tag="L6507_26200"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003849668.1"
                     /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_001530439.1"
                     /translation="MSDTNKFRSLRLARAWSQEQLAELSGMSVRTVQRIENGDQPSLET
                     LSALAAVFEVSVADLSGPDAHGDDALDQKIAEAKSKIAEEGRFYRSVITAVVVCALLLV
                     LNHFTAPASAWSFWVAGIWCALLVIRGMRTFVLRGLISRWQQKRLRRMLRR"
                     /name="helix-turn-helix domain-containing protein"
     gene            525..1025
                     /locus_tag="L6507_RS26205"
                     /old_locus_tag="L6507_26205"
     CDS             525..1025
                     /locus_tag="L6507_RS26205"
                     /old_locus_tag="L6507_26205"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017456310.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF6622 family protein"
                     /protein_id="WP_024195464.1"
                     /translation="MDIADFLRNTPVWVWILLAFLLRRGFAALYDREMTTGRLFFLPIL
                     FLVWGAYGVITETKLAGVSLTMMTAGLLVGTALGYRLWRSQPPLRNSDNPGMIIRAGTP
                     LTLGLIVITFCMKFILVSVIDLHPGLRSSAIFCMLFGGVTGLVDGVFWGGTLRLFIPWY
                     SKR"
                     /name="DUF6622 family protein"
     gene            complement(1381..1494)
                     /locus_tag="L6507_RS26210"
                     /old_locus_tag="L6507_26210"
     CDS             complement(1381..1494)
                     /locus_tag="L6507_RS26210"
                     /old_locus_tag="L6507_26210"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001354639.1"
                     /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_071593754.1"
                     /translation="MHEPPVQSDYHARSGNYQLESNPERHDKSPVAVAIGN"
                     /name="replication initiation protein"
     Typing          complement(1382..1866)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="88.391"
                     /coverage="93.0"
                     /evalue="1.66e-162"
ORIGIN
        1 gcggtcaaca ctgtgtgctg accatcttcc attcggagac aggaaatgag tgataccaac
       61 aaattcaggt cgctgcgtct tgcgcgtgcc tggtcccagg agcagcttgc tgaactgtcc
      121 gggatgagcg tgcgcacggt tcagcgtatc gagaacggcg atcagccaag cctggaaaca
      181 ctgagtgccc tggctgctgt atttgaggtg agcgtggcgg atctttccgg ccctgatgcg
      241 catggcgatg acgctcttga ccagaaaatt gccgaagcga agagcaaaat agctgaggaa
      301 ggccgttttt accgatcagt aattacggct gtcgtcgtct gcgcgctgtt gcttgttctt
      361 aaccacttta cggccccggc cagcgcatgg tcattttggg ttgcggggat ctggtgtgcg
      421 ctgctggtta ttcgtggcat gagaacgttc gttttgcgcg ggctgatcag cagatggcaa
      481 cagaaacgac tgaggcggat gctgcggcga taatgggaat acttatggat attgcagact
      541 ttttacgaaa tacccccgtc tgggtatgga tcctgctggc ttttttacta cgacgcggtt
      601 ttgctgctct ttatgaccgg gagatgacaa ccgggcgttt gttttttctc ccgatacttt
      661 tccttgtatg gggagcatat ggtgttatca ctgagacaaa acttgctggc gtaagcctta
      721 caatgatgac ggcaggactg ctcgtaggca ccgctcttgg atacaggttg tggcgctcac
      781 agcccccgct gagaaattca gataatccgg gcatgattat cagggccggg acaccgctga
      841 ctttgggact gattgtaatt actttttgca tgaagtttat acttgtctca gtcattgatc
      901 tgcaccccgg attacggtca tccgcaattt tttgcatgtt atttggcggt gtgacaggac
      961 ttgttgatgg cgtattctgg ggtggaaccc tgagactttt cataccctgg tacagcaaaa
     1021 gatgattgtt agtaggtgta tgtatttatg ggtttttatg gggtttcatc ggccatccca
     1081 aaaccctgat tttacgatct atgaaatagg ccggtttaat cttcaaacgc cttcatggat
     1141 gaagacgata atcgctcctg taaaaaggat cttcttgaga tccttttttt ctgcgcgtaa
     1201 tctcttgctc tgaaaacgaa aaaaccacct ggggaggtgg tttgatcgaa ggttaggtca
     1261 gttggggaac tgcttaacct ggtaactgtc ttgtgcgaga cgagtcacct aaactgtcct
     1321 tccagtgtag ccgcactcag gcccccactt caagaacttc agataaatct ctcgcacatc
     1381 tcagttacca atggctaccg ccactggcga tttgtcgtgt ctttccgggt tggactcaag
     1441 ttgatagtta ccggaacggg cgtggtagtc ggactgaacg gggggttcgt gcatacagtc
     1501 cagcttggag cgaactgcct acccggaact gagtgtcagg cgtggaatga gacaaacgcg
     1561 gccataacag cggaatgaca ccggtaaacc gaaaggcagg aacaggagag cgcacgaggg
     1621 agctaccagg gggaaacgcc tgggatcttt atagtcctgt cgggtttcgc cgccactgat
     1681 ttgagcgtca gatttcgtga tgcttgtcag gggggcggag cctatggaaa aacggctacg
     1741 ccgcatcctt tttccggtcc ttcctgattt gagcactgcc tgcgtatccc gttatttgtg
     1801 agccggtaac gcccgccgca gtctcacggc aggagcgtag cgaccgagtg agcgaggagg
     1861 cgtcatttca cctttaccta catgttgcac ttacgcacga tagccacatt tttcctttgc
     1921 cacatgaagc acttccctga attaccactc cgatttaaca tattaagcca gtatacactc
     1981 cgctatcgct acgtgactgg gtcatggctg cgccccgaca cccgctaaaa cccgctgacg
     2041 cgccctgacg ggcttgtcgg ctcccggcat ccgctcacag gcaagctgtg tccgtctccg
     2101 ggagctgcct gtatcagccc gttatgccat catcgccgaa gcgttcccgg caacgttggt
     2161 agcgttcatc cgccacttcg tgaagttgtt ctggtgaaaa aaacacgtac aggacggggc
     2221 aggatgtgca tttgtcggac cgcgcacgcg caatcagaca aatgccacct ggtcagggca
     2281 cagccccgac accctggaca acaccacagc aataagataa aacgtacctg ggcgcgtttc
     2341 tctgcctctt ttttcatcat ctctgggatt cgcgctcacc cgtcctctgc tgtcgggttt
     2401 atgtatcccc gtcgcccgtg gagatgaata acgggccggg ggattaaaaa tccccgtgcc
     2461 gcacagccgg cgttgcataa aattccgctc tgcggtgact attgtttaat caaaaatccc
     2521 cgcagttcct ccagaaaaac gcgagtctgt tctcattccc aggatgccca caccccacgc
     2581 aaaactaact tttttctgat ttgcttttta aatcatgttg ttatggtttg aaaaatatat
     2641 tttcttattc ggatttatac aaaagcggct cgtcggcgac tactggatga ctcggcaacg
     2701 agtcgtcggt gatttatcga tgactcaaca cactgtcgct ctggtgttca gagaaggcaa
     2761 gtcgccagag agtcgcgagg aaaaatactg gatgactcgc cgacgactcc cgtagtgaat
     2821 cgctcacgac tcgtctgtaa ctacagtctg atttcttctt atcagggctg aaaacgtccg
     2881 aaaatacgcc ttatgggcat cagacgcgcc caaaccgatc gccattcagt ttcatgcata
     2941 gtcatgcaac gcgctgaaag cgttcctgac gcatttttcc ggtttacccg ggtgaaaaca
     3001 tccattttta cggtttttgc gccagaagcg cgctgagcgc gttttaacgg tgcgtacaat
     3061 tgaactctta tgttaaatct gaccgtacat gcttctgaag ttacggtttc aaagacctca
     3121 atgcggcatg tcagaccgct gtcacgttac tgtcgggtta agatcgtggt cgcgcaggat
     3181 tat
//
