LOCUS       NZ_CP107132             4088 bp    DNA     circular CON 14-AUG-2023
DEFINITION  Escherichia coli strain S7 plasmid pS7-S3K40-4, complete sequence.
ACCESSION   NZ_CP107132
VERSION     NZ_CP107132.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN31158880
            Assembly: GCF_030708235.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4088)
  AUTHORS   Jaen-Luchoro,D., Kahnamouei,A., Yazdanshenas,S., Lindblom,A.,
            Samuelsson,E., Ahren,C. and Karami,N.
  TITLE     Comparative Genomic Analysis of ST131 Subclade C2 of ESBL-Producing
            E. coli Isolates from Patients with Recurrent and Sporadic Urinary
            Tract Infections
  JOURNAL   Microorganisms 11 (7), 1622 (2023)
   PUBMED   37512795
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 4088)
  AUTHORS   Jaen-Luchoro,D., Kahnamouei,A., Yazdanshenas,S., Lindblom,A.,
            Samuelsson,E., Ahren,C. and Karami,N.
  TITLE     Direct Submission
  JOURNAL   Submitted (05-OCT-2022) Infectious Diseases, University of
            Gothenburg - CCUG, Guldhedsgatan 10a, Box 7193, Gothenburg, Vastra
            Gotaland 40234, Sweden
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 1326x
            Sequencing Technology :: Illumina NovaSeq, Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 08/11/2023 08:00:31
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,359
            CDSs (total)                      :: 5,244
            Genes (coding)                    :: 5,009
            CDSs (with protein)               :: 5,009
            Genes (RNA)                       :: 115
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 235
            CDSs (without protein)            :: 235
            Pseudo Genes (ambiguous residues) :: 0 of 235
            Pseudo Genes (frameshifted)       :: 79 of 235
            Pseudo Genes (incomplete)         :: 174 of 235
            Pseudo Genes (internal stop)      :: 40 of 235
            Pseudo Genes (multiple problems)  :: 53 of 235
            Pseudo Genes (short protein)      :: 3 of 235
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP107132.1.
            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..4088
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="S7"
                     /isolation_source="human"
                     /db_xref="taxon:562"
                     /plasmid="pS7-S3K40-4"
                     /geo_loc_name="Sweden: Gothenburg"
                     /collection_date="2018"
     gene            join(3276..4088,1..1347)
                     /gene="mobQ"
                     /locus_tag="OGM49_RS26780"
                     /old_locus_tag="OGM49_26755"
     CDS             join(3276..4088,1..1347)
                     /gene="mobQ"
                     /locus_tag="OGM49_RS26780"
                     /old_locus_tag="OGM49_26755"
                     /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_001029344.1"
                     /translation="MAIYHLSMKIISRNSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPRELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAVGPAGFGGKVRDWNDRTHAET
                     WRASWADHANRALVNAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNSGLTEPARRVADLLNIVLPDNATSYTLRDIIEALPKDSN
                     AAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQTAFEKQWQQWGASGLAALRVQL
                     LKREEELRRKEQEDTERSRAERRAEQLRKNDNAVMDSGVLSAVVTGYGEAPMPGNGEMT
                     CYLLLHNRNGEYTLWGNELEKYRTRIFERVDLMRDRSGYICDRSEIGQHPPLQRVYSSA
                     TFEQLLTQVCQTWPQYTRNLRQPKTWPESFCLGEDRQPAMPSLAARKVDFTQGRLLPTL
                     MPVMSSVDRETRQLQLLLVMGVDDSLGGVVRLNGTLYPAFAVPSADNSQLVISALTDKG
                     LRYAGYGVAVNHDADSHISPAPELMEFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRT
                     WDEWRREEDARTHATERRHDRGWSQ"
                     /name="mobQ"
     gene            complement(1603..2310)
                     /locus_tag="OGM49_RS26785"
                     /old_locus_tag="OGM49_26760"
     CDS             complement(1603..2310)
                     /locus_tag="OGM49_RS26785"
                     /old_locus_tag="OGM49_26760"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001296720.1"
                     /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_001296720.1"
                     /translation="MTSNPLIAYKSNALVEASYKLTLQEQRFLLLCISRLNSGTDVASP
                     ELQKTMTITAAEYFDSFPDMGRKNAEVQLQEAIDRLWDRSIILKDDEKREEFRWIQYRA
                     QYARGEGKAQITFSDAVMPYLTQLKGQFTRVVIKNISNLSRSYSIRIYEILQQFRSTGE
                     RIIALDDFKSSLMLDGKYKDFKTLNRDLIKPCVDELNKKSDLAVTVETIKKGRTVVALH
                     FRFKEDKQIKMTI"
                     /name="replication initiation protein"
     gene            complement(2843..3097)
                     /gene="mobC"
                     /locus_tag="OGM49_RS26790"
                     /old_locus_tag="OGM49_26765"
     CDS             complement(2843..3097)
                     /gene="mobC"
                     /locus_tag="OGM49_RS26790"
                     /old_locus_tag="OGM49_26765"
                     /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_000091745.1"
                     /translation="MSRTLEQKIADAEARLQRLKAKSRSLDTAQKVIVGAALLAKVRKP
                     EEVQLRAWLLQFLKAEVTRQADVTRILPLINELEALPGQ"
                     /name="mobC"
     Typing          complement(3099..3275)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          3276..3634
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(1605..2310)
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.859"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          3190..4088
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.333"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atcatcgaag cgttgccgaa ggacagtaat gcggcatgga aactcaccag taatgccatg
       61 tcgatgatgg cagatatgca ggcgacgcgc agacgctggg aagagctgaa caccgaacga
      121 aaggaagcga tgagccatgc tgccagcctg aaaaaatcat cgccgttttc gtccggtttt
      181 tcccgtattc ccctgatgca atgggcggca ccggaatacc gtagcgaaca gggaaaaatc
      241 cagtcgctga gccagcaaat ggaaaaattg cgacagcatt accggaaggt ggagaaacag
      301 gacattcccg cgagtcagac ggcatttgaa aaacagtggc agcagtgggg ggcatccggc
      361 cttgcagctc tcagagtcca gttgcttaaa cgtgaagagg aattgcgccg gaaggagcag
      421 gaggatacag aacgtagtcg cgcggagcga cgagcggaac agctcaggaa aaatgacaat
      481 gccgttatgg attcaggggt actgagcgca gtcgttacgg ggtatggcga ggcccccatg
      541 cctggtaacg gggaaatgac ctgttacctt ctgcttcaca accggaacgg agaatacacg
      601 ctctggggga acgagctgga gaaataccgc accagaatct ttgagcgtgt tgatttaatg
      661 cgtgacagga gtggttatat ctgtgaccga agcgaaatcg gtcaacatcc accactgcaa
      721 cgtgtttatt cctctgcgac ctttgagcaa cttctgacgc aggtttgcca gacatggccg
      781 caatataccc gcaatctccg ccagccgaag acatggccgg agtctttctg tcttggagaa
      841 gaccgccagc cagccatgcc atcactggca gcaaggaagg tggattttac gcagggacgt
      901 ctgctaccga cgctgatgcc ggtaatgagt tctgtcgacc gggaaacccg ccagcttcag
      961 cttttgctgg tcatgggcgt ggatgactct ctgggcggtg ttgtccggct taatggtacg
     1021 ctgtatcccg cgtttgccgt tccctcagcc gataacagcc agctggtcat cagtgcactg
     1081 accgataagg ggttacggta tgcagggtat ggtgttgccg taaatcacga tgcagacagc
     1141 cacatatcac ctgcgccgga acttatggag tttcatctga aaacccgtga ggcaccgctt
     1201 tttgctgccg tcaacacacc agaaaaacag ccggatcatc tgttccgctc gctgggtttt
     1261 aatcgtacct gggacgaatg gcggcgcgag gaagatgcac gaacacacgc caccgagagg
     1321 agacatgatc gcggttggtc acagtgaatg tgaacaatat tttgttttgt ttaacatcgt
     1381 gttatgttcg tcgatgttct tcgatgttca tcgacaggga tgaatgcaag aagcacacac
     1441 ataatgcaag catagttttg tttttccgcc cccaaaaaat gggggttctt ttttcgctgc
     1501 attagagcgc ttttgacgca atttttcact tcaatagtac cttcgcacta ctaacacaaa
     1561 aaaaacgcag cagggagcgt tttaggtgcc ttaaaatcga ttttagatcg tcatcttgat
     1621 ttgtttgtct tccttgaagc gaaaatgcag ggctacaacc gtgcgcccct ttttgatcgt
     1681 ctcaaccgtt acagccaggt cgcttttttt gttcagttcg tcaacacagg gttttattag
     1741 atccctgttt aacgttttga aatctttata tttaccatca agcatcagtg atgatttaaa
     1801 atcatcgagg gcgataatac gttccccagt actgcggaat tgctggagaa tttcgtatat
     1861 tcttatgctg taacttcttg ataaattaga aatattttta atgacgactc tggtgaattg
     1921 ccccttcaac tgtgtcagat aaggcattac cgcgtcagaa aaagtgattt gtgctttccc
     1981 ctctcccctc gcgtactgtg cccgatactg aatccagcgg aactcctcgc gcttctcgtc
     2041 gtccttgaga atgatcgacc tgtcccacaa acgatcgatc gcttcctgta gctgaacctc
     2101 ggcatttttc cgccccatat cagggaatga atcaaaatat tccgcagctg taatggtcat
     2161 tgtcttttgc aattcaggtg aagctacgtc agtaccggag ttaagtcggc ttatgcagag
     2221 caataagaaa cgctgttctt gtaaagttag cttgtaactg gcctcaacca gcgcattgga
     2281 cttataggct atcagagggt ttgatgtcat tttaaccacc aggccaaaaa tgaggtgaaa
     2341 taaaaaccta tcacctttag cattggtgag caattatatt ttcacccccc attttcctgt
     2401 gaatattacc ttaaatctcc tcacctttac cttaaattac ctcacccaag caccttaaat
     2461 tatatcacct ttaccttaaa tcatattacc tatagcattg taacattttg ttttctataa
     2521 ggaattttgg cgctaaaaca agtattaaaa acaagatctt aaaaacaaga tctaaaaact
     2581 taacgacgag cctgtggata acttggagtg ctgaaaacaa aaaaccaata aaaacaatgc
     2641 gttgcaaaaa aagcagaatt gcaagttccg aatacacccc ctccaaccct gtggaaatcc
     2701 agtattcatg cgggttcagc gcatatcacc tcccgaaaaa ccgtgcgtat gtgctcaatc
     2761 aggcgacgga ttcacttccg cttcctcgcc cactcgctcg ctaacgctcg gtcgctggga
     2821 ctgcggcgag cggacgatac aatcactgtc ctggcagcgc ttccagctcg ttaatcagcg
     2881 gcagtatgcg cgtcacatca gcctgtcgtg tcacctctgc cttcaggaac tggagtaacc
     2941 aggcacgcaa ctgcacctcc tccggctttc tgacctttgc cagcaatgct gcacccacaa
     3001 tgaccttctg cgctgtgtcc agactcctgc tcttcgcctt caggcgctgt aatctggcct
     3061 cagcatcagc aatcttctgt tcgagtgttc tgctcatgat gtaactccgt gcgcgatgaa
     3121 aaatcgcatt ttagcgcgtc actggtagtt taaaaactga gctggcataa tgcacggaaa
     3181 atcacgaagt gcgcacttat acaatctcca ctccgtttcg attgtgtgcg ccctgcgggg
     3241 ctgaaagaaa accacaaaaa ggcattacgg cagaaatggc gatttatcat ctcagcatga
     3301 aaatcatctc cagaaacagc ggctacagcg ccgttgcttc tgctgcctat cgttccggtt
     3361 cactgatgct tgatgagcgt accggactga ctcacgacta cacccgcaaa agcggtgtgg
     3421 ctgaagctgt gattctgact cccgcgacag cccctgcctg gtgtacgaac cgtgccgaac
     3481 tctggaatgc cgttgagaag gccgaacgcc ggaagaactc acaacttgcg cgggaaattg
     3541 aactcgccat cccccgcgaa ctaccgcagg atgccgcacg ggaaaccgtt ctcgcctttg
     3601 tcagagaaaa ctttgtcagt cagggcatga ttgctgatgt ggcgttccat cacatggata
     3661 aaacaaatcc ccatgcgcac atcatgctga ccacgagagc tgtcggacct gctggattcg
     3721 gtggaaaggt cagggactgg aacgaccgga cacatgccga gacgtggcgt gcatcatggg
     3781 ctgaccatgc gaacagggca ctggtgaacg ccggttatca ggaagagata gaccatcgtt
     3841 catacgagcg acaggggctt gagaaaacgc ctggtattca cctcggaaag tctgcctgtg
     3901 cgatggaaac acgcggtatc gaaacagaac gcggcgaaca gaatcgtctg attaacagac
     3961 ttaacctgga aatacagatt tcccgtaccg aactcagaaa cagcgggctg acagagcctg
     4021 cccgccgtgt ggctgacctt ctgaatatcg tgcttcctga caacgcaact tcgtacacac
     4081 tacgtgac
//
