LOCUS       NZ_CP117019             1796 bp    DNA     linear   CON 11-MAR-2024
DEFINITION  Escherichia coli strain MLI106K3 plasmid p1_MLI106-3, complete
            sequence.
ACCESSION   NZ_CP117019
VERSION     NZ_CP117019.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN29553888
            Assembly: GCF_024331445.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 1796)
  AUTHORS   Riediger,M. and Zautner,A.E.
  TITLE     Molecular epidemiology of Escherichia coli with resistance against
            third-generation cephalosporins isolated from stool samples of
            European soldiers with diarrhea on deployment in Western African
            Mali
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 1796)
  AUTHORS   Riediger,M. and Zautner,A.E.
  TITLE     Direct Submission
  JOURNAL   Submitted (29-JAN-2023) Institute of Medical Microbiology and
            Hospital Hygiene, Medical Faculty, Otto-von-Guericke University
            Magdeburg, Leipziger Strasze 44, Magdeburg, Saxony-Anhalt 39120,
            Germany
REFERENCE   3  (bases 1 to 1796)
  AUTHORS   Zautner,A.E. and Riediger,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-JUL-2022) Institute of Medical Microbiology and
            Hospital Hygiene, Medical Faculty, Otto-von-Guericke University
            Magdeburg, Leipziger Strasze 44, Magdeburg, Saxony-Anhalt 39120,
            Germany
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 25-JAN-2023
            Assembly Method :: trycycler v. 0.5.3; unicycler v. 0.5.0; skesa v.
            2.4.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 03/11/2024 05:22:15
            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)                     :: 4,770
            CDSs (total)                      :: 4,650
            Genes (coding)                    :: 4,499
            CDSs (with protein)               :: 4,499
            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)              :: 151
            CDSs (without protein)            :: 151
            Pseudo Genes (ambiguous residues) :: 0 of 151
            Pseudo Genes (frameshifted)       :: 50 of 151
            Pseudo Genes (incomplete)         :: 108 of 151
            Pseudo Genes (internal stop)      :: 33 of 151
            Pseudo Genes (multiple problems)  :: 34 of 151
            Pseudo Genes (short protein)      :: 3 of 151
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP117019.1.
            Bacteria and source DNA available from Institute of Medical
            Microbiology and Hospital Hygiene Medical Faculty Otto-von-Guericke
            University Magdeburg 39120 Magdeburg, Germany.
            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..1796
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="MLI106K3"
                     /isolation_source="stool sample"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p1_MLI106-3"
                     /geo_loc_name="Mali: Koulikoro"
                     /lat_lon="12.52 N 7.34 W"
                     /collection_date="2014-06-24"
                     /collected_by="Bundeswehr Medical Service"
     gene            complement(1273..1794)
                     /locus_tag="NL424_RS00360"
                     /old_locus_tag="NL424_000360"
     CDS             complement(1273..1794)
                     /locus_tag="NL424_RS00360"
                     /old_locus_tag="NL424_000360"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221105.1"
                     /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_002430889.1"
                     /translation="MTTDKEREMRKKDLEEQDRYVSEKHTQKQKNQNFTQVYPLGWKRL
                     RELFRGNPGAAELYSMLAENIDGSCGAVVADQSHLASLLGVGRQTISRYVKWLEEQGVL
                     VKIPVAGKVCAYALNPHEVWKGYDNAKPYAAFLTKTLVNKDGDIQRRIMAMFHGSNARQ
                     GMEGDTPEAE"
                     /name="helix-turn-helix domain-containing protein"
     Typing          651..729
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="95.0"
                     /coverage="80.0"
                     /evalue="3.8200000000000005e-27"
ORIGIN
        1 tctgggtata cataccccct cctgacagtt cattttttaa tcaatctctg tatgcgacac
       61 attgtcgctt gaatgtaaca tatacatgta aaaaccatgt gtcaatgtgt cgcatatgcg
      121 ctacatgttg ggtaaatctg tcgcacataa gggatgcgac aacgttgtcg caaaaaagcc
      181 tactttcaaa aaaccaaacc tataaaaatc aatcacttat tattttccgc tcttatctat
      241 aaaaaatagg cctgcggcga agctcattat ttgaccgatt tctgggagga tagcgccgca
      301 ggccgcacat gtttctgagc gtcagcgaag aaacatataa gtgcgcatct ctctaatttc
      361 acgaatttga gagatgaaag cagagtcccg cactgagatc ggctctaggg gctgctctgg
      421 aatctcttta cgacgattcc tccatttcga atttttttat gtagcgttta ctacagtgct
      481 ttcggcgcgg ggatttttaa gtcaaaaaaa cccctgaaac atcagggggt atgaagagga
      541 attattgtgg agtaaccaat attattttta tcggctagtt acgggctgga caaacccgta
      601 acaatgctga atttgccgta gttgtgcctg aaaaacaatc ctgatttcgg gacaggatgt
      661 gggaatgtcg gaccgcgcac gcgcactcag acattcccca caaggtcagg gcttcacccc
      721 gacaccccgc accagtgcgt acgtgctcaa tgtaacttca ggttctcttc cgcttcctcg
      781 cccactcgct cactacgttc ggtcgttggg gctgcggcga gcggtatcat ctctcgcatg
      841 ttgtcggcga ttctgttgct tttctgttcg aaaatgcgtt ctgtaagcca tccagagcac
      901 cagaacgcga ttttctggtg tcgataatgg tttggtatgt attggccctt aaaacgcgct
      961 cagaagctcc cagacgcacg aaacggggtt taaatgcccg tcagggcatg ggaggcgcga
     1021 aaaacgctta cagagggttt caggaggtca ggcgcgccga tacccctaac taggggcttt
     1081 caggtcgcca ggaaccgcgt cagcctcctg caaagctcat ttgcacggca cagacagcca
     1141 ctcggttggt aggtggtcgt agaccgtcgg tgttacagcg atgggggtct ggggttctcc
     1201 ccagacggct tccggtagcg ctcaaggcgc tgccggaacc gtggcggctc ggtcgttctg
     1261 gagaacgggt atctattcgg cttcaggtgt gtcgccttcc atgccctgac gggcattgct
     1321 tccgtggaac atagccatga ttcggcgttg gatgtcaccg tctttgttga ccaaagtctt
     1381 ggtcaaaaat gccgcatacg gcttggcatt gtcgtatccc ttccagactt catgagggtt
     1441 taacgcataa gcgcatacct ttccagccac aggaattttg accaatacac cttgttcttc
     1501 caaccactta acgtatctag aaatagtttg tcttccaacg ccaagtaacg atgctaagtg
     1561 gctttgatca gcaacaacag cgccacaaga gccatcgatg ttctccgcaa gcatcgaata
     1621 aagctctgcg gctcccgggt ttcctctgaa aagttctctg aggcgcttcc accctagagg
     1681 gtatacttga gtaaagtttt gattcttttg cttttgggtg tgcttttcag aaacgtaacg
     1741 atcttgttct tcgagatctt ttttgcgcat ttctcgctct ttatccgtgg tcacat
//
