LOCUS       NZ_CP145676             5165 bp    DNA     circular CON 05-APR-2024
DEFINITION  Escherichia coli strain S1-ZIM-01-A plasmid p5-S1-ZIM-01-A, complete
            sequence.
ACCESSION   NZ_CP145676
VERSION     NZ_CP145676.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33052302
            Assembly: GCF_036884545.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5165)
  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  JOURNAL   Unpublished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 5165)
  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                   :: 363.5853X
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_036884545.1-RS_2024_04_05
            Annotation Date                   :: 04/05/2024 17:24:20
            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)                     :: 5,478
            CDSs (total)                      :: 5,356
            Genes (coding)                    :: 5,141
            CDSs (with protein)               :: 5,141
            Genes (RNA)                       :: 122
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 215
            CDSs (without protein)            :: 215
            Pseudo Genes (ambiguous residues) :: 0 of 215
            Pseudo Genes (frameshifted)       :: 71 of 215
            Pseudo Genes (incomplete)         :: 162 of 215
            Pseudo Genes (internal stop)      :: 29 of 215
            Pseudo Genes (multiple problems)  :: 48 of 215
            Pseudo Genes (short protein)      :: 4 of 215
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP145676.1.
            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..5165
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="S1-ZIM-01-A"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p5-S1-ZIM-01-A"
                     /geo_loc_name="Switzerland"
                     /lat_lon="46.947928 N 7.422277 E"
                     /collection_date="2022"
                     /collected_by="Institute for Infectious Diseases (IFIK),
                     University of Bern"
     gene            1..915
                     /locus_tag="V6S34_RS27350"
                     /old_locus_tag="V6S34_27350"
     CDS             1..915
                     /locus_tag="V6S34_RS27350"
                     /old_locus_tag="V6S34_27350"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001738986.1"
                     /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_001271363.1"
                     /translation="MSAALQYFEENLPHRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKLCADVNYSGLICKNPFHLEWLVMEWREEAYTLDELADYLDLSASE
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLEAVIQRVEMYNASLPVPLSL
                     AECRAIGKSIAKYTHRNFTPETFAQYVADTHTPEIQAARGRKGGSKSKRSTVATSARTL
                     KPWEALGISRAWYYQLKKRGLVE"
                     /name="replication initiation protein"
     gene            complement(1119..1517)
                     /locus_tag="V6S34_RS27355"
                     /old_locus_tag="V6S34_27355"
     CDS             complement(1119..1517)
                     /locus_tag="V6S34_RS27355"
                     /old_locus_tag="V6S34_27355"
                     /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_001222914.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLIDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKELKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            1694..2620
                     /locus_tag="V6S34_RS27360"
                     /old_locus_tag="V6S34_27360"
     CDS             1694..2620
                     /locus_tag="V6S34_RS27360"
                     /old_locus_tag="V6S34_27360"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221102.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_001331297.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTPEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQNRTAPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            2623..3156
                     /locus_tag="V6S34_RS27365"
                     /old_locus_tag="V6S34_27365"
     CDS             2623..3156
                     /locus_tag="V6S34_RS27365"
                     /old_locus_tag="V6S34_27365"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005221103.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000168770.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTILDRNYNATAAVYQKVVTLED
                     KLVEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            complement(3222..3431)
                     /locus_tag="V6S34_RS27370"
                     /old_locus_tag="V6S34_27370"
     CDS             complement(3222..3431)
                     /locus_tag="V6S34_RS27370"
                     /old_locus_tag="V6S34_27370"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001618649.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001096196.1"
                     /translation="MAKLGENTPHIIDATVDFMASSQAFREYLKKLPPDNTIPPALTDE
                     HVPLYIRRLEYYRLLYRPKQTESY"
                     /name="hypothetical protein"
     Typing          2..915
                     /name="rep_cluster_2131"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.909"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1695..2617
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atgagcgccg cgcttcaata cttcgaagaa aatttacccc accgtcccta tcacacggat
       61 gatctcgctt tcggccttcg tatctccggc aaagggcgcg cgcttcttgc acggtatatc
      121 cagcagaacc agcctcatgc acagttctgg ctggtttttg acgttgaccg cgagggggct
      181 gcgattgact ggagcgaccg gaacgctccc gcgccgaaca tcaccgttaa aaatcctgtg
      241 aacggacacg ctcacctgct ctacgcactc aacatcgccg tgagaaccgc gcctgatgcc
      301 tcggttaagg cgctgaaata tgccgcagcg gttgaacgtt cgctgtgtga gaaactttgt
      361 gcggatgtga actacagcgg cctgatttgc aaaaatccgt tccacctgga atggctggtg
      421 atggagtggc gcgaggaagc ctataccctc gatgaactgg ctgattatct cgatttgagc
      481 gcctcagagc gtcgtagcat cgataaacat tacgggatgg ggcgaaactg ccacctgttc
      541 gaaatgacgc gcaaatgggc ttacagggcg attcgtcagg gctggccagc gttctcacag
      601 tggcttgaag cggtgatcca gcgtgtcgaa atgtacaatg catcgcttcc cgttccgctt
      661 tcactggctg aatgtcgggc tattggcaag agcattgcga aatacacgca caggaacttc
      721 acgccggaaa ctttcgcaca gtatgtggct gatacgcaca cgccagaaat tcaggctgca
      781 cgcggtcgca agggcggttc taagtctaag cgcagcacag tagctacatc tgcacgcacg
      841 ctgaaaccgt gggaggcatt agggatcagt cgcgcctggt attaccaact gaaaaaacga
      901 ggtctcgtag agtagaccaa ataagcctat atcagataac agcgcctttc tggcgtcttt
      961 ttgagcagca ggttttttgc cgtttttccc cgttcagccc tgcaatggcg cggctttccg
     1021 cgtgattgtg gtggtagtgc tcgccgcagt ctcatgaccg agcgtagcga gcgaatgagc
     1081 gaggaagcac cagggaatcg gaacacggat ggaggcactt acgcgtctgg gtttggggat
     1141 gtctccagat cgtacttaag ttccttaagt gcttgtaata tcctgtcttt tttatagcat
     1201 agctcgcctg tttttgtgtc taccagtcct gcttcgatca gtagcccagc cgcgagaaag
     1261 agccggtgat tgcgttcccg tcgttgtttt tttccctcga ttcgtttttg gaccgcctgt
     1321 tttcgttcgc tctcctgtgc ctgtaagtcg tttttttccg ctgttgccag tacgtggaga
     1381 agtttgcgtt cctgttctgt gagtccggct tcgttgtcga tcaggtcaat aatctgtctc
     1441 tgtcgtgcgg tctgttctcc gagcttcctg atgaatccga tccgtttctt cagccattcg
     1501 atgttgctga tgcgcatgtt cgtgatgctc cctggtgttt ttttgcggtg tgttgtggtc
     1561 gtgcagtata tcgcttgcgg tcggcgggtg cagggggtat cttccgtgct aattcgtaaa
     1621 attagaagga agcgcactta tatgtttctc tccttcgtcg agaaacagtg cgctcctgca
     1681 gagggctgaa accgtggcaa cctatcacct cagcgttaaa tttggtggca aggggcaggc
     1741 tgcaaaccac gccgattaca tcgagcgcaa agagaaatac cgcgaccgtc aggatttgga
     1801 atattccgca cacggaaaca tgccggaatg ggccagggat aatccttccc atttctggca
     1861 ggcggctgac cagtttgaac gtgcgaacgg ttcgacctat agggaacttg aaattgcatt
     1921 accccgtgaa ctgacaccgg aacagcgcct tgaactggtg caggattttg tacgtcagga
     1981 agctggcgaa cggcacgcct ggagttttgc cattcacaat ccgaaagcga gcattgacgg
     2041 cggcgaacag cctcatgcgc atatcatgat gagtcagcgt gtgaatgatg gcattgaacg
     2101 tacaccggaa cagtatttcc ggcgctataa cgccaggtat cccgagcggg gaggtgcgaa
     2161 aaaggattcc ggaagcctga ctctcactca gcaaaaagag cagttgcggg aattgcgaaa
     2221 acgctgggag gtgaagcaca acgaacatat gagaaagcat ggctttgaaa ggggcttcat
     2281 tgactgccgg acgctgaaag aacagggcat tgaacgacgt cccgaagtgc atctgggttt
     2341 tgaagctgcc ggacggcttg atgatgccca gcgtcatgac atcatgcaaa aacggtctga
     2401 accggactat tcccgccatc ttgaacaggc gcgaacggtc gggcatgaca tcagggaatg
     2461 gctggacact ccggttaagc aacatgaact ggtcagaagg ctgcaacatg atgttgcgcg
     2521 ggagcatggc tttgacatga gagacagagt gagcagacag aaccgaactg cacctgaacg
     2581 ggttaaatca ccgtcacgtg gattttctat gggattctga acatggccag cacagaagaa
     2641 aaattactca cgctcctgtt atcggtggag catctgcaac ataccgcaat ggagcaacag
     2701 aaagctgttg ctgattctct ggctgtggca agggaaactc ttcgcggata tcgggatatt
     2761 tctgacggtg tggcaaaaca ggtcagggat gaagtcagaa atgaggtgca gaagctggac
     2821 gtggcaggac tgataggtga gcgcatcagc caggattttc agcggctgga agagtcagtc
     2881 gcaaacatga aggcaaacgc ggatgccctg aacagggata ttgcgacaat tcacagcaat
     2941 atcgtgcagg aatacaacac ccttaaaggg tatagctgga aatggctggg tggggtgtca
     3001 gtggcttttc tggttatgtt ctgtgtgctc ggatggggaa tgaaaacaat actcgacagg
     3061 aactacaacg ccacagcggc ggtgtatcag aaagttgtga cactggaaga taaactggtg
     3121 gagaaacctg tcacggggaa gagccggaaa aactgacgcg cttcgcttgt ccaacgcctc
     3181 acgacccgcg aaaggatttc gcgaaccgtt caccgttttt ttcaatatga ttctgtctgc
     3241 tttggtcgat aaagcagacg atagtattcc agccttcgta tatataacgg tacgtgctca
     3301 tcagtaagag ctggcggtat tgtgttatca gggggaagtt ttttcagata ctcacgaaat
     3361 gcctggcttg atgccataaa atctacagta gcatcgataa tatgtggggt gttttcacct
     3421 aattttgcca tgatgataat ccttatatta tcacggtttg tgaatgatag ggtgtcacta
     3481 ttatttatgc gttagtgaac cagaaaaaat cccccgttgg cataggggga tatgtaagga
     3541 gaaataactt cgcaggtgtt cttgtttgta taacgtgaaa agactgcacg caacttaata
     3601 agtctgccgt acttactttc agttttcaac ataaggttta taacaatgta tggaatggaa
     3661 gtgagcttta aggtttcagc tctaaaaaat aaaatattta ttagttggct ggttgttgtt
     3721 cttgttctgt atgtatataa acactatcga catattatga ccgggaacat tccttacccc
     3781 ctctgcgctc gcagaggttt tttttgtcat taattaataa tgaactgaaa tgcagttccg
     3841 atacctccat ttgcacatta tccctgacat atggtaccgg aaccgcatta attttatgtt
     3901 ataagagttt atttttaatg tccagatggt ttaatagtat ttatatgtaa ttagctgtat
     3961 ggatagtact ggttttattg tataacttgt cgtttttttt tattgttttt gtgtggtgtg
     4021 ctaatctttt agttataaaa aaaccccttg gaatacaggg gcaaaagtaa ggaaaacaaa
     4081 tggatgctca gtttgtgtga cactttaaac taatggaact atagagtgga ggttgttaca
     4141 gtcgctttta taaaacagca accagttttt ttcaatagtc tgatgatggt tgtgacagtt
     4201 ttgtgatatt gttcaaaatg tttcttgttg aatgtttgtt ttttggtcta ttggtgtctg
     4261 gttttatttt ttctgctatt acatatcaag aaatgtgatt ggtgtagcaa gagtggaatg
     4321 cgatgtggat aaactaattg gttgtcgaat ctaatttact tagaaaacta cacttgtttt
     4381 tgtgtatgaa tttagtgaat ttgtctgtct atgtgttttc gtgcatttat aaatccttcg
     4441 tcaggatctt aaatttagtg ttgaatatgt agggcctgta cggtaattat tatttagcgt
     4501 agctacttca tcgttgttcg aacacaacca acaacctgta attgttgttt ctcttggttc
     4561 cccacttttg tggggttttt tatctcttcc gtgcatcgta aagcgcggac tccttctgga
     4621 aaggttgttt tagggcatca ctgaggcatt ttttgcgttt gtgaatattg agcatccgat
     4681 aactaaaata tttcccatag actctgattc ttgccaccga ccccaggtcg gttttttttt
     4741 gtcctggcga gatgtgaagt ttggaaacag gaaaccccgt cagagcgcca cgcaccaggg
     4801 gagaaaactt gtcgttttga gccgttcggt gttcagaacg cacgaaaccg atcgcacatc
     4861 gctttcgtgc atagttatgc aacgccctga aaacgattct gacgcgtttt tctggtttgg
     4921 cctggtgttt tcttgtcttt ttgcgttttt tgcgccagaa agcgactgag ggcgttttaa
     4981 ggggtacgta caacgggagt tatggtaaat ggatcggatt tgcgggaagg ctcgacaggt
     5041 tttgtcgttg ggggtagtgt aagcgactga aaaacaaacg cccctgaaat tcgtgtctat
     5101 ccgccaagac tttcacgaaa atacaggggc gatgtcggtc gataacctgg aaggaatcgt
     5161 aacac
//
