LOCUS       NZ_CP145625             4083 bp    DNA     circular CON 05-APR-2024
DEFINITION  Escherichia coli strain S1-ESP-02-A plasmid p3-S1-ESP-02-A, complete
            sequence.
ACCESSION   NZ_CP145625
VERSION     NZ_CP145625.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33052315
            Assembly: GCF_036884375.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4083)
  AUTHORS   Campos-Madueno,E.I., Aldeia,C. and Endimiani,A.
  TITLE     Strains isolated from intestinal colonization screening for
            multidrug-resistant Enterobacterales in stool samples from healthy
            people living abroad
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4083)
  AUTHORS   Campos-Madueno,E.I., Aldeia,C. and Endimiani,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-FEB-2024) Institute for Infectious Diseases,
            University of Bern, Friedbuehlstrasse 25, Bern 3001, Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 349.7547X
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_036884375.1-RS_2024_04_05
            Annotation Date                   :: 04/05/2024 17:24:04
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,026
            CDSs (total)                      :: 4,908
            Genes (coding)                    :: 4,657
            CDSs (with protein)               :: 4,657
            Genes (RNA)                       :: 118
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 251
            CDSs (without protein)            :: 251
            Pseudo Genes (ambiguous residues) :: 0 of 251
            Pseudo Genes (frameshifted)       :: 98 of 251
            Pseudo Genes (incomplete)         :: 173 of 251
            Pseudo Genes (internal stop)      :: 45 of 251
            Pseudo Genes (multiple problems)  :: 59 of 251
            Pseudo Genes (short protein)      :: 4 of 251
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP145625.1.
            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..4083
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="S1-ESP-02-A"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p3-S1-ESP-02-A"
                     /geo_loc_name="Switzerland"
                     /lat_lon="46.947928 N 7.422277 E"
                     /collection_date="2021"
                     /collected_by="Institute for Infectious Diseases (IFIK),
                     University of Bern"
     gene            84..338
                     /gene="mobC"
                     /locus_tag="V6S47_RS25105"
                     /old_locus_tag="V6S47_25105"
     CDS             84..338
                     /gene="mobC"
                     /locus_tag="V6S47_RS25105"
                     /old_locus_tag="V6S47_25105"
                     /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_196107148.1"
                     /translation="MSRTLEQKIAEAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobC"
     gene            871..1572
                     /locus_tag="V6S47_RS25110"
                     /old_locus_tag="V6S47_25110"
     CDS             871..1572
                     /locus_tag="V6S47_RS25110"
                     /old_locus_tag="V6S47_25110"
                     /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_001281397.1"
                     /translation="MSDLIAYKSNALVEASYKLTLQEQRFLLLCIGRLKSGADAESPKL
                     QKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRAQY
                     AKGEARAQITFSDAVMPYLTQLQGQFTRVVIKNISRLSRSYSIRIYELLQQFRSTGERI
                     IALDDFRSMLDIEHKYQTYKSLNQQLLRPCIDELNKKSDLAVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(1830..3989)
                     /gene="mobQ"
                     /locus_tag="V6S47_RS25115"
                     /old_locus_tag="V6S47_25115"
     CDS             complement(1830..3989)
                     /gene="mobQ"
                     /locus_tag="V6S47_RS25115"
                     /old_locus_tag="V6S47_25115"
                     /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_273655466.1"
                     /translation="MAIYHLSMKIISRNSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYSSEQDKIQSLSQRMEKLRLHYRKVEKQDIPASQMVFETQWQQWGASGLAALRAQL
                     LKREEELRRREQEDTERRRAERLAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRSRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSA
                     TFEQLLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAIPSLAARKVDFTQGRLPPTL
                     MPVMSSVDRENRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHATERRHDRGWSQ"
                     /name="mobQ"
     Typing          2..83
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="95.181"
                     /coverage="99.0"
                     /evalue="1.7000000000000003e-28"
     Typing          complement(3632..3990)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          3991..4083
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="95.745"
                     /coverage="99.0"
                     /evalue="1.3e-34"
     Typing          872..1572
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(1834..4076)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.925"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tttctgcgca ttatgccagc tcagttttta aactaccagt gacgagctaa aatgcgattt
       61 ttcaccgcgc acggagttac atcatgagca gaacactcga acagaaaatt gccgaagctg
      121 aagccagatt gcagcgtctg aaggcaaaga gccggagcct ggacacagcg cagaaggtcg
      181 ttgtaggtgc tgcattgctg gcaaaggtca gaaagccgga ggaggtgcaa ttgcgcgcct
      241 ggttactcca gttcctgaag gcagaggtga cacgacaggc tgatgtgacg cgcatactgc
      301 cgctgattaa cgagctggaa gcgctgccag gacagtgatt gtatcgtccg ctcgccgcag
      361 tcccagcgac cgagcgttag cgagcgagtg ggcgaggaag cggaagtgaa tccgtcgcct
      421 gattgagcac atacgcacgg tttttcggga ggtgatatgc gctgaacccg catgaatact
      481 ggatttccac agggttggag ggggtgtatt cggaacttgc aattctgctt ttttgcaacg
      541 cattgttttt attggttttt tgttttcagc actccaagtt atccacaggc tcgtcgttaa
      601 gtttttagat cttgttttta agatcttgtt tttaatactt gttttagcgc caaaattcct
      661 tatagaaaac aaaatgttac accgctatag gtaatatgat ttaaggtaaa ggtaatatga
      721 tttaaggtgt ttaggtaata tgatttaagg taaaggcaat atgatttaag gtaatattca
      781 cagaaaaagg gatattaaaa taaaaaggca ttgcctttcg ttgagggtat gtttatcttt
      841 tattcattac cttttgggga gggatgctct atgtcggatc taattgccta taaatccaat
      901 gcgctggttg aagccagtta taaattgacc ctacaggaac agcgattttt gttactttgc
      961 atcggtcgat tgaagtctgg ggctgatgca gaatctccaa aattgcaaaa gacaatgacc
     1021 attacagctg cggaatattt cgattcattc cctgacatgg ggcggaaaaa tgccgaggtt
     1081 cagttacagg aagcaattga tcgtttgtgg gacaggtcaa tcattctcaa ggatgacgag
     1141 aaacgtgagg agttccgctg gatccagtat cgggcacagt acgctaaagg cgaggccaga
     1201 gcacaaataa cattttctga cgcagtaatg ccttatttga cacaactaca agggcaattt
     1261 actagagttg taatcaagaa tatatctaga ttatcaagaa gttacagtat aaggatatac
     1321 gaactcctcc agcagttccg cagtactggc gaacgtatta tcgctctcga tgattttcgc
     1381 tcaatgcttg atatagagca taaatatcaa acatataaat cacttaacca gcaattatta
     1441 agaccctgca ttgacgaact gaacaaaaaa agcgacctgg ctgtaacggt tgagacgatc
     1501 aaaaaggggc gcacggttgt agccctgcat tttcgcttca aggaagacaa acaaatcaag
     1561 atgacgatct aaaatcgatt ttaaggcacc taaaacgctc cctgctgcgt tttttttgtg
     1621 ttagtagtgc gaaggtacta ttgaagtgaa aaattgcgtc aaaagcgctc taatgcagcg
     1681 aaaaaagaac ccccattttt tgggggcgga aaaacaaaac tatgcttgca ttatgtgtgt
     1741 gtgcttcttg cattcatccc tgtcgatgaa catcgaagaa catcgaagaa cataacacga
     1801 tgttaaataa aacaaaatat tgttcacatt cactgtgacc aaccgcgatc atgtctcctc
     1861 tcggtggcgt gtgttcgtgc atcttcctcg cgccgccatt cgtcccaggt acgattaaaa
     1921 cccagcgagc ggaacagatg atccggctgt ttttctggtg tgttgacggc agcaaaaagc
     1981 ggtgcctcac gggttttcag atgaaactcc ataagttccg gcgcaggtga tatgtggctg
     2041 tctgcatcgt gatttacggc aacaccatac cctgcatacc gtaacccctt atcggtcagt
     2101 gcactgatga ccagctggct gttatcggct gagggaacgg caaacgcggg atacagcgta
     2161 ccattaagcc ggacaacacc gcccagagag tcatccacgc ccatgaccag caaaagctga
     2221 agctggcggt tttcccggtc gacagaactc attaccggca tcagcgtcgg tggcagacgt
     2281 ccctgcgtaa aatccacctt ccttgccgcc agtgatggaa tggctggctg gcggtcttct
     2341 ccaagacaga aagactccgg ccatgttttc ggctggcgga gattacgggt atgttgcggc
     2401 catgtctggc aaacctgcgt cagcagttgc tcaaaggtcg cagaggaata aacacgttgc
     2461 agtggtggac gttgaccgat ttcgcttcgg tcacagatat aaccactcct gtcacgcatt
     2521 aaatcaacac tctcaaaaat tctggagcgg tatttctcca gctcgttccc ccagagcgta
     2581 tattctccgt tccggttgtg aagcagaagg taacaggtca tttccccgtt acctggcatg
     2641 ggagcctcgc cataccccgt aacgactgct ctcagtaccc ctgaatccat aacggcattg
     2701 tcatttttcc tgagctgctc agccagtcgc tccgcgcgac gacgttctgt atcctcctgc
     2761 tccctccggc gcaattcctc ttcacgttta agcaactgag ctctgagcgc tgcaaggccg
     2821 gaagcccccc actgctgcca ctgtgtttca aataccatct gactcgcggg aatgtcctgt
     2881 ttctcaacct tccggtaatg cagccgtaat ttttccatgc gctggctcag cgactgaatt
     2941 ttgtcctgtt cgctgctgta ttccggtgca gcccattgca tcaggggaat acgggaaaaa
     3001 ccggacgaaa acggcgatga ttttttcagg ctggcagcat ggctcatcgc ttcctttcgt
     3061 tcggtgttca gctcttccca gcgtctgcgc gtcgcctgca tatctgccat catcgacatg
     3121 gcattactgg tgagtttcca tgccgcgtta ctgtccttcg gcaacgcttc gatgatgtca
     3181 cgtagtgtgt acgaagttgc gttgtcagga agcacgatat tcagaaggtc agccacacgg
     3241 cgggcaggct ctgtcagccc gctgttcctg agttcggtac gggaaatctg tatttccagg
     3301 ttaagtctgt taatcagacg attctgttcg ccgcgttctg tttcgatacc gcgtgtttcc
     3361 atcgcacagg cagactttcc gaggtgaata ccaggcgttt tctcaagccc ctgtcgctcg
     3421 tatgaacgat ggtctatctc ttcctgataa ccggcgttcg ccagtgccct gttcgcatgg
     3481 tcagcccatg atgcacgcca cgtctcggca tgtgtccggt cgttccagtc cctgaccttt
     3541 ccaccgaatc cagcaggtcc gacagctctc gtggtcagca tgatgtgcgc atggggattt
     3601 gttttatcca tgtgatggaa cgccacatca gcaatcatgc cctgactgac aaagttttct
     3661 ctgacaaagg cgagaacggt ttcccgtgcg gcatcctgcg gtagttcgcg ggggatggcg
     3721 agttcaattt cccgcgcaag ttgtgagttc ttccggcgtt cggccttctc aacggcattc
     3781 cagagttcgg cacggttcgt acaccaggca ggggctgtcg cgggagtcag aatcacagct
     3841 tcagccacac cgcttttgcg ggtgtagtcg tgagtcagtc cggtacgctc atcaagcatc
     3901 agtgaaccgg aacgataggc agcagaagca acggcgctgt agccgctgtt tctggagatg
     3961 attttcatgc tgagatgata aatcgccatt tctgccgtaa tgcctttttg tggttttctt
     4021 tcagccccgc agggcgcaca caatcgaacc gaaggtgaga ttgtataagt gcgcacttcg
     4081 tga
//
