LOCUS       NZ_CP117005             4074 bp    DNA     linear   CON 11-MAR-2024
DEFINITION  Escherichia coli strain MLI108K3 plasmid p4_MLI108-3, complete
            sequence.
ACCESSION   NZ_CP117005
VERSION     NZ_CP117005.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN29553893
            Assembly: GCF_024331535.2
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4074)
  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  JOURNAL   Unpublished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 4074)
  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 4074)
  AUTHORS   Zautner,A.E. and Riediger,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-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 05:38:42
            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)                     :: 5,061
            CDSs (total)                      :: 4,934
            Genes (coding)                    :: 4,769
            CDSs (with protein)               :: 4,769
            Genes (RNA)                       :: 127
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 94
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 165
            CDSs (without protein)            :: 165
            Pseudo Genes (ambiguous residues) :: 0 of 165
            Pseudo Genes (frameshifted)       :: 55 of 165
            Pseudo Genes (incomplete)         :: 109 of 165
            Pseudo Genes (internal stop)      :: 38 of 165
            Pseudo Genes (multiple problems)  :: 33 of 165
            Pseudo Genes (short protein)      :: 3 of 165
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP117005.1.
            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..4074
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="MLI108K3"
                     /isolation_source="stool sample"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p4_MLI108-3"
                     /geo_loc_name="Mali: Koulikoro"
                     /lat_lon="12.52 N 7.34 W"
                     /collection_date="2014-07-24"
                     /collected_by="Bundeswehr Medical Service"
     gene            complement(156..2315)
                     /gene="mobQ"
                     /locus_tag="NL411_RS01605"
                     /old_locus_tag="NL411_001605"
     CDS             complement(156..2315)
                     /gene="mobQ"
                     /locus_tag="NL411_RS01605"
                     /old_locus_tag="NL411_001605"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_016245161.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLPPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            2494..2748
                     /gene="mobC"
                     /locus_tag="NL411_RS01610"
                     /old_locus_tag="NL411_001610"
     CDS             2494..2748
                     /gene="mobC"
                     /locus_tag="NL411_RS01610"
                     /old_locus_tag="NL411_001610"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000091747.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase accessory protein MobC"
                     /protein_id="WP_000091747.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobC"
     gene            3280..3972
                     /locus_tag="NL411_RS01615"
                     /old_locus_tag="NL411_001615"
     CDS             3280..3972
                     /locus_tag="NL411_RS01615"
                     /old_locus_tag="NL411_001615"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /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_001281403.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCISRLKSGADAELQKT
                     MTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKNDEKREEFRWIQYRAQYAKG
                     EAKARITFSDAVMPYLTQLKGQFTRVVIKNISGLSSSYSIRIYEFLQQFRSTGERIIAL
                     NDFRSMLGIENKYKQFRDLNKILIKPCVDELNKKSDLAVTVETIKKGRTVVALHFRFKE
                     DKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(1958..2316)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.056"
                     /coverage="100.0"
                     /evalue="3.94e-177"
     Typing          2317..2493
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          3281..3972
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.965"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(160..2402)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.332"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gcagcgaaaa aagaaccccc aatttttggg ggcggaaaaa caaaactatg cttgcattat
       61 gtgagtgtgc ttcttgcatt catccctgtc gatgaacatc gaagaacatc gacgaacata
      121 acacgatgtt aaacaaaaca aaatattgtt cacattcact gtgaccaacc gcgatcatgt
      181 ctcctctcgg tggtgtgtgt tcttgcatct tcctcgcgcc gccattcgtc ccaggtacga
      241 ttgaaaccca gcgagcggaa cagatgatcc ggctgttttt ctggtgtgtt gacggcagca
      301 aaaagcggtg cctcacgggt tttcagatga aactccataa gttccggcgc aggtgatatg
      361 tggctgtctg catcgtgatt tacggcaaca ccataccctg cataccgtaa ccccttatcg
      421 gtcagtgcac tgatgaccag ctggctgtta tcggctgagg gaacggcaaa cgcgggatac
      481 agcgtaccat taagccggac aacaccgccc agagagtcat ccacgcccat gaccagcaaa
      541 agctgaagct ggcgggtttc ccggtcgaca gaactcatta ccggcatcag cgtcggtggc
      601 agacgtccct gcgtaaaatc caccttcctt gctgccagtg atggcatggc tggctggcgg
      661 tcttctccaa gacagaaaga ctccggccat gtcttcggct ggcggagatt gcgggtatat
      721 tgcggccatg tctggcaaac ctgcgtcaga agttgctcaa aggtcgcaga ggaataaaca
      781 cgttgcagtg gtggatgttg accgatttcg cttcggtcac agatataacc actcctgtca
      841 cgcattaaat caacacgctc aaagattctg gtgcggtatt tctccagctc gttcccccag
      901 agcgtgtatt ctccgttccg gttgtgaagc agaaggtaac aggtcatttc cccgttacca
      961 ggcatggggg cctcgccata ccccgtaacg actgcgctca gtacccctga atccataacg
     1021 gcattgtcat ttttcctgag ctgttccgct cgtcgctccg cgcgactacg ttctgtatcc
     1081 tcctgctcct tccggcgcaa ttcctcttca cgtttaagca actggactct gagagctgca
     1141 aggccggatg ccccccactg ctgccactgt ttttcaaatg ccgtctgact cgcgggaatg
     1201 tcctgtttct ccaccttccg gtaatgctgt cgcaattttt ccatttgctg gctcagcgac
     1261 tggatttttc cctgttcgct acggtattcc ggtgccgccc attgcatcag gggaatacgg
     1321 gaaaaaccgg acgaaaacgg cgatgatttt ttcaggctgg cagcatggct catcgcttcc
     1381 tttcgttcgg tgttcagctc ttcccagcgt ctgcgcgtcg cctgcatatc tgccatcatc
     1441 gacatggcat tactggtgag tttccatgcc gcattactgt ccttcggcaa cgcttcgatg
     1501 atgtcacgta gtgtgtacga agttgcgttg tcaggaagca cgatattcag aaggtcagcc
     1561 acacggcggg caggctctgt cagcccgctg ttcctgagtt cagtgcggga aatctgtatt
     1621 tccaggttaa gcctgttaat cagacgattc tgttcgccgc gttctgtttc gataccgcgt
     1681 gtttccatcg cacaggcaga ctttccgagg tgaataccag gcgttttctc aagcccctgt
     1741 cgctcgtatg aacgatggtc tatctcttcc tgataaccgg cgttcgccag tgctctgttt
     1801 gcatggtcag cccatgatgc acgccacgtc tcggcatgtg tccggtcgtt ccagtccctg
     1861 acctttccgc cgaacccagc aggtccgaca gccctcgtgg tcagcatgat gtgcgcatgg
     1921 ggatttgttt tatccatgtg atggaacgcc acatcagcaa tcatgccctg actgacaaag
     1981 ttttctctga caaaggcgag aacggtttcc cgtgcggcat cctgcggcag ttcacggggg
     2041 atagcgagtt caatttcccg cgcaagttgt gagttcttcc ggcgttcggc cttctcaacg
     2101 gcattccaga gttcggcacg gttcgtacac caggcagggg ctgtcgcggg ggtcagaatc
     2161 acagcttcag ccacaccgct tttgcgggtg tagtcgtgag tcagtccggt acgctcatca
     2221 agcattagtg aaccggaacg ataggcagcg gaagctacgg cgctgtagcc gctgcttctg
     2281 gagataattt tcatgctgag atgataaatc gccatttctg ccgtaatgcc tttttgtagt
     2341 tttctttcag ccccgcaggg cgcacacaat cgaaacggag tggagattgt ataagtgcgc
     2401 acttcgtgat ttgccgtgca ttatgccagc tcagttttta aactaccagt gacgcgctaa
     2461 aatgcgattt ttcatcgcgc acggagttac atcatgagca gaacgctcga acagaagatt
     2521 gctgatgctg aggcgagatt acagcgcctg aaggcgaaga gccggagcct ggacacagcg
     2581 cagaaggttg ttgtgggtgc agcattgctg gcaaaggtca gaaagccgga ggaggtgcag
     2641 ttgcgtgcct ggttactcca gttcctgaag gcagaggtga cacgacaggc tgatgtgacg
     2701 cgcatactgc cgctgattaa cgagctggag gcgctgccag gacagtgatt gtatcgtccg
     2761 ctcgccgcag ccccagcgac cgagcgttag cgagcgagtg ggcgaggaag cggaagtgaa
     2821 tccgtcgcca ggttgagcac atacgcacgg tttttcggca ggtgatatgc gctgaactcg
     2881 catgaatact ggatttccac agggttggaa ggggagtatt cggaacttgc aattctgctt
     2941 tcttgcaaca cattgttttt attggttttt tgttttcagc accccaagtt atccacaggc
     3001 tcgccgttaa gtttttagat cttgttttta agatcttgtt tttaatactt gttttagggg
     3061 tgaaattcat taataaaatc aatatgttat agtggtatat gtggaggaat ttaaggtaaa
     3121 ggtggaggaa tttaaggtgt ttaggtggag gaatttaagg taaaggtgga ggaatttaag
     3181 gtgttattca cagaaatgtg aggatataaa aaaaaacatt ccacatttct tatttgtggg
     3241 gcacattaaa gcatcaccac atttgaacgg gatctttgta tgtcggactt gattgcctac
     3301 aagtcgaatg ctttggttga ggccagctac aagttgaccc tacaggaaca acgttttctg
     3361 ttgctgtgta tcagtcgatt gaaatctggt gctgatgctg aattgcaaaa gacaatgacc
     3421 attaccgctg cggaatattt tgattcattc cctgacatgg ggcggaaaaa tgccgaggtt
     3481 cagttacagg aagcgatcga tcgtttatgg gacaggtcga tcattctcaa gaatgacgag
     3541 aagcgtgagg agttccgctg gatccagtat cgggcacagt acgctaaagg tgaggccaag
     3601 gctcgaataa ccttttctga cgcggtaatg ccttatctga cgcaactgaa ggggcaattc
     3661 acgcgcgttg ttataaaaaa catatcaggt ttatcaagta gttacagtat aagaatatac
     3721 gagttcctcc agcaattccg cagtacggga gagagaatta ttgctcttaa tgactttcgt
     3781 tcaatgttag ggattgaaaa taaatacaaa caattcagag acttaaataa aatactaata
     3841 aaaccctgtg ttgacgaact gaacaaaaaa agcgacctgg ctgtaacggt tgagacgatc
     3901 aaaaaggggc gcacggttgt agccctgcat tttcgcttca aggaagacaa acagatcaag
     3961 atgacgatct aaaatcgatt ttaaggcacc taaaacgctc cctgctgcgt tttttttgtg
     4021 ttagtagtgc gaaggtacta ttgaagtgaa aaattgcgtc aaaaacgctc tgat
//
