LOCUS       NZ_CP117052             4074 bp    DNA     linear   CON 11-MAR-2024
DEFINITION  Escherichia coli strain MLI106K4 plasmid p4_MLI106-4, complete
            sequence.
ACCESSION   NZ_CP117052
VERSION     NZ_CP117052.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN29553889
            Assembly: GCF_024331525.2
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  JOURNAL   Unpublished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 (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 05:25:21
            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)                     :: 5,063
            CDSs (total)                      :: 4,940
            Genes (coding)                    :: 4,671
            CDSs (with protein)               :: 4,671
            Genes (RNA)                       :: 123
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 269
            CDSs (without protein)            :: 269
            Pseudo Genes (ambiguous residues) :: 0 of 269
            Pseudo Genes (frameshifted)       :: 79 of 269
            Pseudo Genes (incomplete)         :: 197 of 269
            Pseudo Genes (internal stop)      :: 49 of 269
            Pseudo Genes (multiple problems)  :: 56 of 269
            Pseudo Genes (short protein)      :: 4 of 269
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP117052.1.
            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="MLI106K4"
                     /isolation_source="stool sample"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p4_MLI106-4"
                     /geo_loc_name="Mali: Koulikoro"
                     /lat_lon="12.52 N 7.34 W"
                     /collection_date="2014-06-24"
                     /collected_by="Bundeswehr Medical Service"
     gene            <1..681
                     /locus_tag="NL407_RS01100"
                     /old_locus_tag="NL407_001100"
                     /pseudo=""
     CDS             <1..681
                     /locus_tag="NL407_RS01100"
                     /old_locus_tag="NL407_001100"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016240513.1"
                     /note="incomplete; too short partial abutting assembly gap;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="conjugal transfer protein"
                     /name="conjugal transfer protein"
     gene            complement(939..1631)
                     /locus_tag="NL407_RS01105"
                     /old_locus_tag="NL407_001105"
     CDS             complement(939..1631)
                     /locus_tag="NL407_RS01105"
                     /old_locus_tag="NL407_001105"
                     /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_023308214.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCISRLKSGADAELQKT
                     MTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKNDEKREEFRWIQYRAQYAKG
                     EAKARITFSDAVMPYLTQLKGQFTRVVIKNISGLSSSYSIRIYEFLQQFRSTGERIIAL
                     NDFRSMLGIENKYKQFRDLNKILIKPCVEELNKKSDLAVTVETIKKGRTVVALHFRFKE
                     DKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(2163..2417)
                     /gene="mobC"
                     /locus_tag="NL407_RS01110"
                     /old_locus_tag="NL407_001110"
     CDS             complement(2163..2417)
                     /gene="mobC"
                     /locus_tag="NL407_RS01110"
                     /old_locus_tag="NL407_001110"
                     /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            2596..>4074
                     /gene="mobQ"
                     /locus_tag="NL407_RS01115"
                     /old_locus_tag="NL407_001115"
     CDS             2596..>4074
                     /gene="mobQ"
                     /locus_tag="NL407_RS01115"
                     /old_locus_tag="NL407_001115"
                     /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_272785019.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAECRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALENAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRD"
                     /name="mobQ"
     Typing          complement(2419..2595)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.438"
                     /coverage="100.0"
                     /evalue="2.610000000000001e-86"
     Typing          2596..2954
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.056"
                     /coverage="100.0"
                     /evalue="3.94e-177"
     Typing          complement(940..1631)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.815"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          2..678
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.558"
                     /coverage="100.0"
                     /evalue="1.11e-149"
     Typing          2597..4074
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.594"
                     /coverage="83.0"
                     /evalue="0.0"
ORIGIN
        1 aggagtggtt atatctgtga ccgaagcgaa atcggtcaac atccaccact gcaacgtgtt
       61 tattcctctg cgacctttga gcaacttctg acgcaggttt gccagacatg gccgcaatat
      121 acccgcaatc tccgccagcc gaagacatgg ccggagtctt tctgtcttgg agaagaccgc
      181 cagccagcca tgccatcact ggcagcaagg aaggtggatt ttacgcaggg acgtctgcta
      241 ccgacgctga tgccggtaat gagttctgtc gaccgggaaa cccgccagct tcagcttttg
      301 ctggtcatgg gcgtggatga ctctctgggc ggtgttgtcc ggcttaatgg tacgctgtat
      361 cccgcgtttg ccgttccctc agccgataac agccagctgg tcatcagtgc actgaccgat
      421 aaggggttac ggtatgcagg gtatggtgtt gccgtaaatc acgatgcaga cagccacata
      481 tcacctgcgc cggaacttat ggagtttcat ctgaaaaccc gtgaggcacc gctttttgct
      541 gccgtcaaca caccagaaaa acagccggat catctgttcc gctctctggg tttcaatcgt
      601 acctgggatg aatggcggcg cgaggaagat gcaagaacac acaccaccga gaggagacat
      661 gatcgcggtt ggtcacagtg aatgtgaaca atattttgtt ttgtttaaca tcgtgttatg
      721 ttcgtcgatg ttcttcgatg ttcatcgaca gggatgaatg caagaagcac acacacataa
      781 tgcaagcata gttttgtttt tccgccccca aaaattgggg gttctttttt cgctgcatta
      841 gagcgctttt gacgcaattt ttcacttcaa tagtaccttc gcactactaa cacaaaaaaa
      901 acgcagcagg gagcgtttta ggtgccttaa aatcgatttt agatcgtcat cttgatctgt
      961 ttgtcttcct tgaagcgaaa atgcagggct acaaccgtgc gccccttttt gatcgtctca
     1021 accgttacag ccaggtcgct ttttttgttc agttcttcaa cacagggttt tattagtatt
     1081 ttatttaagt ctctgaattg tttgtattta ttttcaatcc ctaacattga acgaaagtca
     1141 ttaagagcaa taattctctc tcccgtactg cggaattgct ggaggaactc gtatattctt
     1201 atactgtaac tacttgataa acctgatatg ttttttataa caacgcgcgt gaattgcccc
     1261 ttcagttgcg tcagataagg cattaccgcg tcagaaaagg ttattcgagc cttggcctca
     1321 cctttagcgt actgtgcccg atactggatc cagcggaact cctcacgctt ctcgtcattc
     1381 ttgagaatga tcgacctgtc ccataaacga tcgatcgctt cctgtaactg aacctcggca
     1441 tttttccgcc ccatgtcagg gaatgaatca aaatattccg cagcggtaat ggtcattgtc
     1501 ttttgcaatt cagcatcagc accagatttc aatcgactga tacacagcaa cagaaaacgt
     1561 tgttcctgta gggtcaactt gtagctggcc tcaaccaaag cattcgactt gtaggcaatc
     1621 aagtccgaca tacaaagatc ccgttcaaat gtggtgatgc tttaatgtgc cccacaaata
     1681 agaaatgtgg aatatttttt tttatatcct cacatttctg tgaataacac cttaaattcc
     1741 tccaccttta ccttaaattc ctccacctaa acaccttaaa ttcctccacc tttaccttaa
     1801 attcctccac atataccgct ataacatatt gattttatta atgaattttg accctaaaac
     1861 aagtattaaa aacaagatct taaaaacaag atctaaaaac ttaacggcga gcctgtggat
     1921 aacttggggc gctgaaaaca aaaaaccaat aaaaacaatg tgttgcaaga aagcagaatt
     1981 gcaagttccg aatactcccc ttccaaccct gtggaaatcc agtattcatg cgggttcagc
     2041 gcatatcacc taccgaaaaa ccgtgcgtat gtgctcaacc tggcgacgga ttcacttccg
     2101 cttcctcgcc cactcgctcg ctaacgctcg gtcgctgggg ctgcggcgag cggacgatac
     2161 aatcactgtc ctggcagcgc ctccagctcg ttaatcagcg gcagtatgcg cgtcacatca
     2221 gcctgtcgtg tcacctctgc cttcaggaac tggagtaacc aggcacgcaa ctgcacctcc
     2281 tccggctttc tgacctttgc cagcaatgct gcacccacaa caaccttctg cgctgtgtcc
     2341 aggctccggc tcttcgcctt caggcgctgt aatctcgcct cagcatcagc aatcttctgt
     2401 tcgagcgttc tgctcatgat gtaactccgt gcgcgatgaa aaatcgcatt ttagcgcgtc
     2461 actggtagtt taaaaactga gctggcataa tgcacgacaa atcacaaagt gcgcacttat
     2521 acaatctcca ctccgtttcg attgtgtgcg ccctgcgggg ctgaaagaaa actacaaaaa
     2581 ggcattacgg cagaaatggc gatttatcat ctcagcatga aaattatctc cagaagcagc
     2641 ggctacagcg ccgtagcttc cgctgcctat cgttccggtt cactgatgct tgatgagcgt
     2701 accggactga ctcacgacta cacccgcaaa agcggtgtgg ctgaagctgt gattctgacc
     2761 cccgcaacag cccctgcctg gtgtacgaac cgtgccgaac tctggaatgc cgttgagaag
     2821 gccgaatgcc ggaagaactc acaacttgcg cgggaaattg aactcgctat cccccgtgaa
     2881 ctgccgcagg atgccgcacg ggaaaccgtt ctcgcctttg tcagagaaaa ctttgtcagt
     2941 cagggcatga ttgctgatgt ggcgttccat cacatggata aaacaaatcc ccatgcgcac
     3001 atcatgctga ccacgagggc tgtcggacct gctgggttcg gcggaaaggt cagggactgg
     3061 aacgaccgga cacatgccga gacgtggcgt gcatcatggg ctgaccatgc aaacagagca
     3121 ctggagaacg ccggttatca ggaagagata gaccatcgtt catacgagcg acaggggctt
     3181 gagaaaacgc ctggtattca cctcggaaag tctgcctgtg cgatggaaac acgcggtatc
     3241 gaaacagaac gcggcgaaca gaatcgtctg attaacaggc ttaacctgga aatacagatt
     3301 tcccgcactg aactcaggaa cagcgggctg acagagcctg cccgccgtgt ggctgacctt
     3361 ctgaatatcg tgcttcctga caacgcaact tcgtacacac tacgtgacat catcgaagcg
     3421 ttgccgaagg acagtaatgc ggcatggaaa ctcaccagta atgccatgtc gatgatggca
     3481 gatatgcagg cgacgcgcag acgctgggaa gagctgaaca ccgaacgaaa ggaagcgatg
     3541 agccatgctg ccagcctgaa aaaatcatcg ccgttttcgt ccggtttttc ccgtattccc
     3601 ctgatgcaat gggcggcacc ggaataccgt agcgaacagg gaaaaatcca gtcgctgagc
     3661 cagcaaatgg aaaaattgcg acagcattac cggaaggtgg agaaacagga cattcccgcg
     3721 agtcagacgg catttgaaaa acagtggcag cagtgggggg catccggcct tgcagctctc
     3781 agagtccagt tgcttaaacg tgaagaggaa ttgcgccgga aggagcagga ggatacagaa
     3841 cgtagtcgcg cggagcgacg agcggaacag ctcaggaaaa atgacaatgc cgttatggat
     3901 tcaggggtac tgagcgcagt cgttacgggg tatggcgagg cccccatgcc tggtaacggg
     3961 gaaatgacct gttaccttct gcttcacaac cggaacggag aatacacgct ctgggggaac
     4021 gagctggaga aataccgcac cagaatcttt gagcgtgttg atttaatgcg tgac
//
