LOCUS       NZ_CP117018             3045 bp    DNA     linear   CON 11-MAR-2024
DEFINITION  Escherichia coli strain MLI106K3 plasmid p3_MLI106-3, complete
            sequence.
ACCESSION   NZ_CP117018
VERSION     NZ_CP117018.1
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 3045)
  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  JOURNAL   Unpublished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 3045)
  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 3045)
  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
            CP117018.1.
            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..3045
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="MLI106K3"
                     /isolation_source="stool sample"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p3_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(21..284)
                     /locus_tag="NL424_RS00340"
                     /old_locus_tag="NL424_000340"
     CDS             complement(21..284)
                     /locus_tag="NL424_RS00340"
                     /old_locus_tag="NL424_000340"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /GO_function="GO:0008657 - DNA topoisomerase type II
                     (double strand cut, ATP-hydrolyzing) inhibitor activity
                     [Evidence IEA]; GO:0042803 - protein homodimerization
                     activity [Evidence IEA]"
                     /GO_process="GO:0030541 - plasmid partitioning [Evidence
                     IEA]; GO:0051290 - protein heterotetramerization [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_023237785.1"
                     /translation="MISKVLWADKALSDRETIFESNDKVSGLSYAKSEDAKIKRAVSTI
                     KRNNKVGRNDLDERGYVYVLPKRYKILYRLTEEHIFIERVFY"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            complement(296..691)
                     /locus_tag="NL424_RS00345"
                     /old_locus_tag="NL424_000345"
     CDS             complement(296..691)
                     /locus_tag="NL424_RS00345"
                     /old_locus_tag="NL424_000345"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000896281.1"
                     /translation="MAFVSQVDKSRAASSRIGDSSIVVTQSYKASTKAQELSIRLKSLV
                     LSKGGMKIGDYVDVLYDKDSDRWMLRKMDGGLKITGKDDAPTGLIRYTLKDTHARFTED
                     KEHLPIRKSSIEDSLEIEDGQIVFKLD"
                     /name="hypothetical protein"
     gene            914..1201
                     /locus_tag="NL424_RS00350"
                     /old_locus_tag="NL424_000350"
     CDS             914..1201
                     /locus_tag="NL424_RS00350"
                     /old_locus_tag="NL424_000350"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004099076.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelB/DinJ family
                     antitoxin"
                     /protein_id="WP_023237786.1"
                     /translation="METRVQFRIESETKKMAKQALEKKGISLSDALRAFLDKLAATEKV
                     MTKEETWLKEQIEETFSRVEKGEIRYYSEDEADERMNSFISKIEHQHETA"
                     /name="type II toxin-antitoxin system RelB/DinJ family
                     antitoxin"
     gene            complement(2004..2153)
                     /locus_tag="NL424_RS00355"
                     /old_locus_tag="NL424_000355"
     CDS             complement(2004..2153)
                     /locus_tag="NL424_RS00355"
                     /old_locus_tag="NL424_000355"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_023237787.1"
                     /translation="MPSEHDEQRDVADTQLPGEYDLFDLMAKVTEENLHAPVDSGPPVG
                     REAL"
                     /name="hypothetical protein"
     Typing          complement(2188..2360)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="87.931"
                     /coverage="100.0"
                     /evalue="9.61e-51"
     Typing          2327..2748
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.799"
                     /coverage="80.0"
                     /evalue="0.0"
ORIGIN
        1 caagaaaggt cgccaaacca tcagtagaaa acgcgctcaa taaaaatatg ctcctcagtc
       61 agccgataca aaatcttgta tcttttaggt agaacataga cataacctcg ctcatccagg
      121 tcatttctgc ctactttgtt gtttcgtttt atcgtagaaa cagcacgttt aatttttgca
      181 tcttctgatt ttgcatacga caaaccagaa accttatcgt tagactcaaa gatagtctct
      241 cgatcagata atgccttatc tgcccataga accttagaga tcatcaaacc tcccgctagt
      301 caagcttaaa tacaatctgc ccatcctcaa tctccagtga atcctcaata gaggatttac
      361 gaatagggag gtgctcttta tcctcggtaa atctcgcatg tgtatccttc agggtatatc
      421 taatcaaccc cgtaggggca tcatccttac cagtaatttt taaacctcca tccatcttcc
      481 ttaacatcca gcgatcacta tccttgtcat aaagaacatc aacgtaatca ccaattttca
      541 tacctccctt agataacact aacgatttta atctaatgga tagctcctga gccttagttg
      601 aagccttgta tgattgagtg accactatag acgaatcacc aatcctgctc gaagcagccc
      661 tagacttatc aacctgacta acaaatgcca taaaacctcc tgatagttta ttttcatgtt
      721 cataatacga tcggcaaaaa atcttagcaa cacagaacca tgtttttatc tgatctttat
      781 cctctctcag aacccgaaga aaaaaagtta ctttttctaa tcataaatct aagaaaggag
      841 gcattgactg tagggatccc agcgtctatt gtgagcacaa acgtactcac aatagacgct
      901 gggatctata tctatggaaa caagggtgca attcagaatt gaatctgaaa caaagaaaat
      961 ggcaaagcaa gcacttgaaa aaaaaggcat ttcacttagc gatgcgttaa gagcgtttct
     1021 cgataagtta gcagcaacgg agaaggttat gacgaaagaa gagacatggc tgaaagagca
     1081 gatagaagag acattctcaa gagtagaaaa aggagagatc cgctattact cagaagatga
     1141 agctgacgaa cgcatgaact ccttcatctc taaaatcgaa catcaacacg aaaccgcata
     1201 aaaaaagccg ccataaggcg gcttttttta tgcccttatt taccataaca ccctaattgt
     1261 acgcaccgcc aaaacggcct cagggcgttt ctgacaggaa acaggtaaaa cagacaacaa
     1321 actatcagaa aatcagccaa aaacacgtta gttctgtttt cacgtcatgc atgagtatgc
     1381 gcgcaagtgc atagcgcgga aattcacgcc attcagccgg ggtaagtcct gtttccgatg
     1441 ttcttcttac ccgaaaacgg tgaacgggga cgcaatttat tgcgtagcca tgaggcattt
     1501 tgccggcaca gccggaaaaa ccattttcag cacgtgcagg aagagggggg cggatgtacg
     1561 aatagttcag aggtcagatc tgacgtaaga atgatgtaaa agtgatgtaa ttctgtagtt
     1621 gatttgtagt ttatctgtag ttagccctct gaaaggcatg attaaacatc agcttttgta
     1681 gtctttttgt agtttacctg tagtcaggaa aactactccg ttcatgcgag catgaacgga
     1741 gtagtgaagg acgctttttt gtcatatcag cctcttaacc tgcgcagatg gcccagtcaa
     1801 aatgatgatt ttttaaccct taaatggtca tacacctaac gcagccgcga ttttcatcgc
     1861 aactgcatga attacataaa aaaaatggga tactccattt gtcacggtaa tacgcaaggt
     1921 attacaatca actgtaaata catgaaaata aagaaataag atgtaatacc accgtattac
     1981 acgtacgctt cccaacgaaa aagctataac gcttcccggc cgacaggtgg cccggaatcc
     2041 accggggcgt gcaggttctc ttcagtaacc ttcgccatta aatcaaaaag gtcatactcg
     2101 ccgggaagct gcgtatcagc aacatcccgt tgttcatcat gttcagatgg catggggtga
     2161 tatccagtag ctgagaggtt gttagcgggt tccgggcgca gcgccggacc agtcacgtag
     2221 cgctagcgga gtgtatactg gcttagtatg ttggcatgag tgcgataatc aggaaagcgc
     2281 cttatgtggc aggagaaaaa tgctgcagca gagcgtaagc agaatatgcg atacagaaga
     2341 tattccgctt cctcgctcac tgactcgctg cgctcggtcg ttcggctgcg gcgagcggta
     2401 tcggcttaca ggcggggcgg agatttcctg gaagatgcca agaagaaact taacagggaa
     2461 gcgataaggc cacggcggag ccgtttttcc ataggctccg cccccctgac aagcatcaca
     2521 gaatctgaca ctcaaatcag tggtggcgaa acccgacagg actataaaga taccaggcgt
     2581 ttccccctga tggctccctc gtgcgctctc ctgttcctgc cattcggttt accggtgtca
     2641 ttccgctgtt atggccgcgt ttgtctcatt ccacgcctga cactcagttc cgggtaggca
     2701 gttcgctcca agctggactg tatgcacgaa ccccccgttc agtccgaccc ccacgacaaa
     2761 caagcaactc gactcttgaa tccaatcttg tttgactcaa attatgacaa tggtggaagc
     2821 ctgtaataac tgatttgcgg agcgtagaaa gaaggtaagc aaggatatct tgaagtgagc
     2881 agtgaactac ggctacactg aaagaacaag ttttggtgac tgcgctccgc gaaagccagt
     2941 taccacaagt ccaatgagtt ggtagctcaa aggactacga agaaaccacc gttggtagcg
     3001 gtggttttct tcatcccaag attaatagct aaagagacgc gtagt
//
