LOCUS       NZ_CP145643             4064 bp    DNA     circular CON 05-APR-2024
DEFINITION  Escherichia coli strain S1-ISR-02-A plasmid p7-S1-ISR-02-A, complete
            sequence.
ACCESSION   NZ_CP145643
VERSION     NZ_CP145643.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33052311
            Assembly: GCF_036884415.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4064)
  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  JOURNAL   Unpublished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 4064)
  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                   :: 388.9585X
            Sequencing Technology :: Illumina NovaSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_036884415.1-RS_2024_04_05
            Annotation Date                   :: 04/05/2024 17:19:59
            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)                     :: 5,339
            CDSs (total)                      :: 5,217
            Genes (coding)                    :: 5,010
            CDSs (with protein)               :: 5,010
            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)              :: 207
            CDSs (without protein)            :: 207
            Pseudo Genes (ambiguous residues) :: 0 of 207
            Pseudo Genes (frameshifted)       :: 57 of 207
            Pseudo Genes (incomplete)         :: 155 of 207
            Pseudo Genes (internal stop)      :: 34 of 207
            Pseudo Genes (multiple problems)  :: 37 of 207
            Pseudo Genes (short protein)      :: 4 of 207
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP145643.1.
            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..4064
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="S1-ISR-02-A"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="p7-S1-ISR-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            complement(27..281)
                     /gene="mobC"
                     /locus_tag="V6S43_RS26670"
                     /old_locus_tag="V6S43_26675"
     CDS             complement(27..281)
                     /gene="mobC"
                     /locus_tag="V6S43_RS26670"
                     /old_locus_tag="V6S43_26675"
                     /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_000091746.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVVVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPEQ"
                     /name="mobC"
     gene            460..2607
                     /gene="mobQ"
                     /locus_tag="V6S43_RS26675"
                     /old_locus_tag="V6S43_26680"
     CDS             460..2607
                     /gene="mobQ"
                     /locus_tag="V6S43_RS26675"
                     /old_locus_tag="V6S43_26680"
                     /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_053920598.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAIGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNGGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELKTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGESGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     LHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSPAARKVDFMQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVIRLNGTLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMQFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWEEW
                     QREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(2856..3557)
                     /locus_tag="V6S43_RS26680"
                     /old_locus_tag="V6S43_26685"
     CDS             complement(2856..3557)
                     /locus_tag="V6S43_RS26680"
                     /old_locus_tag="V6S43_26685"
                     /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_001281395.1"
                     /translation="MSDLIAYKSNALIEASYKLTLQEQRFLLVCISRLKSGEDSPSPDE
                     QKTMTITAAEFHDAFPDMGRQHAEARLKEAIDRLWDRSVIIKNEEKREEFRWVQYRAQY
                     FKGEAKVDITFSDAIMPYLTQLKGQFTRVVVKNVSSLSSTYSIRIYELLQQFRSTGDRT
                     IAIDDFRTMLAVEDKYQQFKDLNKMIIKPAIAELNEKSDLVVTVETIKKGRTVVALHFR
                     FKEDKQIKMTI"
                     /name="replication initiation protein"
     Typing          complement(283..459)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          460..818
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2857..3557)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          374..2604
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="95.856"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ggggctgcgg cgagcggacg atacaatcac tgttctggca gcgcctccag ctcgttaatc
       61 agcggcagta tgcgcgtcac atcagcctgt cgtgtcacct ctgccttcag gaactggagt
      121 aaccaggcac gcaactgcac ctcctccggc tttctgacct ttgccagcaa tgcagcaccc
      181 acaacaacct tctgcgctgt gtccaggctc cggctcttcg ccttcaggcg ctgtaatctc
      241 gcctcagcat cagcaatctt ctgttcgagc gttctgctca tgatgtaact ccgtgcgcga
      301 tgaaaaatcg cattttagcg cgtcactggt agtttaaaaa ctgagctggc ataatgcacg
      361 gcaaatcacg aagtgcgcac ttatacaatc tccactccgt ttcgattgtg tgcgccctgc
      421 ggggctgaaa gaaaactaca aaaaggcatt acggcagaaa tggcgattta tcatctcagc
      481 atgaaaatta tctccagaag cagcggctac agcgccgtag cttccgctgc ctatcgttcc
      541 ggttcactga tgcttgatga gcgtaccgga ctgactcacg actacacccg caaaagcggt
      601 gtggctgagg ctgtgattct gacccccgcc accgcccctg cctggtgtac gaaccgtgcc
      661 gaactctgga atgccgttga gaaggccgaa cgccggaaga actcacaact tgcgcgggaa
      721 attgaactcg ccatccccca cgaactgccg caggatgccg cacgggaaac cgttctcgcc
      781 tttgtcagag aaaactttgt cagtcagggc atgattgctg atgtggcgtt ccatcacatg
      841 gataaaacaa atccccatgc gcacatcatg ctgaccacga gggctatcgg acctgctggg
      901 ttcagcggaa aggtcaggga ctggaacgac cggacacatg ccgagacgtg gcgggcatca
      961 tgggctgacc atgcaaacag ggcactggcg aacgccggtt atcaggaaga gatagaccat
     1021 cgttcatacg agcgacaggg gcttgagaaa acgcctggta ttcacctcgg aaagtctgcc
     1081 tgtgcgatgg aaacacgcgg tatcgaaaca gaacgcggcg aacagaatcg tctgattaac
     1141 aggcttaacc tggaaataca gatttcccgc accgaactca ggaacggagg gctgacagag
     1201 cctgcccgcc gtgtggctga ccttctgaat atcgggcttc ctgacaacgc aacttcgtac
     1261 acactacgtg acattatcga agcgttgccg aaggacagta actcggcatg gaaactcacc
     1321 agtaatgcca tgtcgatgat ggcagatatg caggcgacgc gcagacgctg ggaagagctg
     1381 aagaccgaac gaaaggaagc gatgagccat gctgccagcc tgaaaaaatc atcgccgttt
     1441 tcgtccggtt tttcccgtat tcccctgatg caatgggcgg caccggaata ccgtagtgag
     1501 cagggaaaaa tccagtctct gagccagcaa atggaaaaat tacgacagca ttaccggaag
     1561 gtggagaaac aggacattcc cgcgagtcag atggcatttg aaaaacagtg gcagcagtgg
     1621 ggggaatccg gccttgcagc tctcagagcc cagttgctta aacgtgaaga ggaattgcgc
     1681 cggaaggaac aggaagatac tgaacgtagt cgcgcggagc agctcaggaa aaatgacaat
     1741 gccgttatgg attcaggggt gctgagagca gtcgttacgg ggtatggcga ggctcccatg
     1801 cctggtaacg gggaaatgac ctgttacctt ctgcttcaca accggaacgg agaatatacg
     1861 ctctggggga acgagctgga gaaataccgc accagaatct ttgagagtgt tgatttaatg
     1921 cgtgacagga gtggttatat ctgtgaccga agcgaaatcg gccaacgtcc gccactgcaa
     1981 cgtgtttatt cctctgcaac ctttgagcaa ctgctgacgc aggtttgcca gacatggccg
     2041 caacataccc gcaatctccg ccagccgaag acatggccgg agtctttctg tcttggagaa
     2101 gaccgccagc cagccatgcc atcaccagcg gcaaggaagg tggattttat gcagggacgt
     2161 ctgccaccga cgctgatgcc ggtcatgagt tctgtcgacc gggaaacccg ccagcttcag
     2221 cttttgctgg tcatgggcgt ggatgactct ctgggcggtg ttatccggct taatggtacg
     2281 ctgtatcccg cgtttgccgt tccctcagcc gataacaggc atctggtcat cagtgcgctg
     2341 accgataagg ggttacggta tgcagggtat ggtgttgccg taaatcacga tgcagacagc
     2401 cacatatcac ctgcaccaga actgatgcag tttcatctga aaacccgtga ggcaccgctt
     2461 tttgctgccg tcaacacacc agaaaaacag ccggatcatc tgttccgctc gctgggtttt
     2521 aatcgtacct gggaggaatg gcagcgcgag gaagatgcac gaacacacac caccgagagg
     2581 agacatgatc gcggttggtc acagtgaatg tgaacaatat tttgttttgt ttaacatcgt
     2641 gttatgttcg tcgatgttca tcgacaggga tgaatgcaag aagcacactc acataacgca
     2701 agcatagttt tgtttttccg ccccccaaaa attggggggt cttttttcgc tgcatcagag
     2761 cgtttttgac gcaatttttc acttcaatag taccttcgca ctactaacac aaaaaaaacg
     2821 cagcagggag cgttttaggt gccttaaaat cgattttaga tcgtcatctt gatctgtttg
     2881 tcttccttga agcgaaaatg cagggctaca accgtgcgcc cctttttgat cgtctcaaca
     2941 gttacaacca gatcgctttt ttcgttcagt tcggcgatgg ctggcttgat tatcatctta
     3001 ttcaagtctt tgaattgttg atatttatct tcaacggcaa gcatggttcg gaaatcatcg
     3061 atagctatcg ttctgtcacc ggtgctgcgg aactgctgga gcagctcgta aatgcggatg
     3121 ctgtaggtgc tggaaaggct ggagacgttc ttcacgacta cccgcgtaaa ctgccccttg
     3181 agctgtgtca gatacggcat gatggcatcg gagaaggtga tatctacttt cgcctcacct
     3241 ttgaaatact gcgcccggta ctgcacccag cggaactctt ctcgtttttc ctcgttcttg
     3301 atgattactg acctgtccca gaggcgatct atcgcttcct tgagcctagc ttcagcgtgc
     3361 tgccgtccca tgtcaggaaa ggcatcatga aactctgcag ccgtgatggt catggttttt
     3421 tgttcatccg gcgaagggga atcttctccg gattttaggc ggctgataca gaccagcagg
     3481 aagcgctgtt cctgcaaagt gagcttgtag cttgcctcga taagggcgtt tgatttgtaa
     3541 gctatcagat ctgacatttc gcttgctcgt tgctattggt ggcgtttttt tactgtacgc
     3601 cacttatcat atgggtggaa gttttttttt tgcaaccccc tttttctgtg gattacaccc
     3661 ccaaaagctc cacctttcac ccccaaaagc tccacctttc acccccaaaa gctccacctt
     3721 tcacccccaa aagctccact tatcttgcca gaacatcttt aaaatcatgg tgttacaaga
     3781 cctaaaaagg ttttaaaaaa aaagatctaa aaataagatc ttaaaaactt aacggcgagc
     3841 ctgtggataa cttggggtgc tgaaaacaaa aaaccaataa aaacaatgcg ttgcaataaa
     3901 gcagaattgc aagtttcgaa tacaccccct ccaaccctgt ggaaacccag tattcatgcg
     3961 ggttcagcgc atatcacctg ccgaaaaacc gtgcgtatgt gctcaacctg gcgactgatt
     4021 cacttccgct tcctcgccca ctcgctcgct aacgctcggt cgct
//
