LOCUS       NZ_CP059342             4072 bp    DNA     circular CON 03-SEP-2023
DEFINITION  Escherichia coli strain MS8320 plasmid pMS8320C, complete sequence.
ACCESSION   NZ_CP059342
VERSION     NZ_CP059342.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN10141488
            Assembly: GCF_030991425.1
KEYWORDS    RefSeq.
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 4072)
  AUTHORS   White,R.T.
  TITLE     Escherichia coli ST1193 strain MS8320 plasmid pMS8320C
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4072)
  AUTHORS   White,R.T.
  TITLE     Direct Submission
  JOURNAL   Submitted (19-JUL-2020) School of Chemistry and Molecular
            Biosciences, The University of Queensland, Building 76, Cooper Road,
            St Lucia, QLD 4072, Australia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2019
            Assembly Method                   :: Flye v. 2.5
            Assembly Name                     :: MS8320_CS12_NT018_ST1193
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 97.0x
            Sequencing Technology :: Oxford Nanopore MiniION; Illumina NextSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 08/31/2023 16:26:55
            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)                     :: 5,205
            CDSs (total)                      :: 5,086
            Genes (coding)                    :: 4,776
            CDSs (with protein)               :: 4,776
            Genes (RNA)                       :: 119
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 91
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 310
            CDSs (without protein)            :: 310
            Pseudo Genes (ambiguous residues) :: 0 of 310
            Pseudo Genes (frameshifted)       :: 161 of 310
            Pseudo Genes (incomplete)         :: 179 of 310
            Pseudo Genes (internal stop)      :: 41 of 310
            Pseudo Genes (multiple problems)  :: 66 of 310
            Pseudo Genes (short protein)      :: 4 of 310
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP059342.1.
            Bacteria and source DNA available from Escherichia coli.
            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..4072
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="MS8320"
                     /serotype="O75:H5"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:562"
                     /plasmid="pMS8320C"
                     /geo_loc_name="Australia: Northern Territory"
                     /collection_date="2012"
     gene            complement(join(3300..4072,1..1375))
                     /gene="mobQ"
                     /locus_tag="MS8320_RS26015"
     CDS             complement(join(3300..4072,1..1375))
                     /gene="mobQ"
                     /locus_tag="MS8320_RS26015"
                     /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_308387273.1"
                     /translation="MAIYHLSMKIISRSSGYSAVASAAYRSGSLMLDERTGLTHDYTRK
                     SGVAEAVILTPATAPAWCTNRAELWNAVEKAERRKNSQLAREIELAIPHELPQDAARET
                     VLAFVRENFVSQGMIADVAFHHMDKTNPHAHIMLTTRAIGPAGFSGKVRDWNDRTHAET
                     WRASWADHANRALANAGYQEEIDHRSYERQGLEKTPGIHLGKSACAMETRGIETERGEQ
                     NRLINRLNLEIQISRTELRNGGLTEPARRVADLLNIGLPDNATSYTLRDIIEALPKDSN
                     SAWKLTSNAMSMMADMQATRRRWEELNTERKEAMSHAASLKKSSPFSSGFSRIPLMQWA
                     APEYRSEQGKIQSLSQQMEKLRQHYRKVEKQDIPASQMAFEKQWQQWGKSGLAALRAQL
                     LKREEELRRKEQEDTERSRAEQLRKNDNAVMDSGVLRAVVTGYGEAPMPGNGEMTCYLL
                     IHNRNGEYTLWGNELEKYRTRIFESVDLMRDRSGYICDRSEIGQRPPLQRVYSSATFEQ
                     LLTQVCQTWPQHTRNLRQPKTWPESFCLGEDRQPAMPSPAARKVDFMQGRLPPTLMPVM
                     SSVDRETRQLQLLLVMGVDDSLGGVIRLNGTLYPAFAVPSADNRHLVISALTDKGLRYA
                     GYGVAVNHDADSHISPAPELMQFHLKTREAPLFAAVNTPEKQPDHLFRSLGFNRTWEEW
                     QREEDARTHTTERRHDRGWSQ"
                     /name="mobQ"
     gene            1554..1808
                     /gene="mobC"
                     /locus_tag="MS8320_RS26020"
                     /old_locus_tag="MS8320_C0002"
     CDS             1554..1808
                     /gene="mobC"
                     /locus_tag="MS8320_RS26020"
                     /old_locus_tag="MS8320_C0002"
                     /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            2341..3042
                     /locus_tag="MS8320_RS26025"
                     /old_locus_tag="MS8320_C0003"
     CDS             2341..3042
                     /locus_tag="MS8320_RS26025"
                     /old_locus_tag="MS8320_C0003"
                     /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(1018..1376)
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          1377..1553
                     /name="MOBQ"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.61e-88"
     Typing          2342..3042
                     /name="rep_cluster_1778"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(3..1462)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.538"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(3304..4070)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="94.922"
                     /coverage="99.0"
                     /evalue="1.12e-164"
ORIGIN
        1 tcagaaggta acaggtcatt tccccgttac caggcatggg agcctcgcca taccccgtaa
       61 cgactgctct cagcacccct gaatccataa cggcattgtc atttttcctg agctgctccg
      121 cgcgactacg ttcagtatct tcctgttcct tccggcgcaa ttcctcttca cgtttaagca
      181 actgggctct gagagctgca aggccggatt tcccccactg ctgccactgt ttttcaaatg
      241 ccatctgact cgcgggaatg tcctgtttct ccaccttccg gtaatgctgt cgtaattttt
      301 ccatttgctg gctcagagac tggatttttc cctgctcact acggtattcc ggtgccgccc
      361 attgcatcag gggaatacgg gaaaaaccgg acgaaaacgg cgatgatttt ttcaggctgg
      421 cagcatggct catcgcttcc tttcgttcgg tgttcagctc ttcccagcgt ctgcgcgtcg
      481 cctgcatatc tgccatcatc gacatggcat tactggtgag tttccatgcc gagttactgt
      541 ccttcggcaa cgcttcgata atgtcacgta gtgtgtacga agttgcgttg tcaggaagcc
      601 cgatattcag aaggtcagcc acacggcggg caggctctgt cagccctccg ttcctgagtt
      661 cggtgcggga aatctgtatt tccaggttaa gcctgttaat cagacgattc tgttcgccgc
      721 gttctgtttc gataccgcgt gtttccatcg cacaggcaga ctttccgagg tgaataccag
      781 gcgttttctc aagcccctgt cgctcgtatg aacgatggtc tatctcttcc tgataaccgg
      841 cgttcgccag tgccctgttt gcatggtcag cccatgatgc ccgccacgtc tcggcatgtg
      901 tccggtcgtt ccagtccctg acctttccgc tgaacccagc aggtccgata gccctcgtgg
      961 tcagcatgat gtgcgcatgg ggatttgttt tatccatgtg atggaacgcc acatcagcaa
     1021 tcatgccctg actgacaaag ttttctctga caaaggcgag aacggtttcc cgtgcggcat
     1081 cctgcggcag ttcgtggggg atggcgagtt caatttcccg cgcaagttgt gagttcttcc
     1141 ggcgttcggc cttctcaacg gcattccaga gttcggcacg gttcgtacac caggcagggg
     1201 cggtggcggg ggtcagaatc acagcctcag ccacaccgct tttgcgggtg tagtcgtgag
     1261 tcagtccggt acgctcatca agcatcagtg aaccggaacg ataggcagcg gaagctacgg
     1321 cgctgtagcc gctgcttctg gagataattt tcatgctgag atgataaatc gccatttctg
     1381 ccgtaatgcc tttttgtagt tttctttcag ccccgcaggg cgcacacaat cgaaacggag
     1441 tggagattgt ataagtgcgc acttcgtgat ttgccgtgca ttatgccagc tcagttttta
     1501 aactaccagt gacgcgctaa aatgcgattt ttcatcgcgc acggagttac atcatgagca
     1561 gaacgctcga acagaagatt gctgatgctg aggcgagatt acagcgcctg aaggcgaaga
     1621 gccggagcct ggacacagcg cagaaggttg ttgtgggtgc tgcattgctg gcaaaggtca
     1681 gaaagccgga ggaggtgcag ttgcgtgcct ggttactcca gttcctgaag gcagaggtga
     1741 cacgacaggc tgatgtgacg cgcatactgc cgctgattaa cgagctggag gcgctgccag
     1801 aacagtgatt gtatcgtccg ctcgccgcag ccccagcgac cgagcgttag cgagcgagtg
     1861 ggcgaggaag cggaagtgaa tcagtcgcca ggttgagcac atacgcacgg tttttcggca
     1921 ggtgatatgc gctgaacccg catgaatact gggtttccac agggttggag ggggtgtatt
     1981 cgaaacttgc aattctgctt tattgcaacg cattgttttt attggttttt tgttttcagc
     2041 accccaagtt atccacaggc tcgccgttaa gtttttaaga tcttattttt agatcttttt
     2101 tttaaaacct ttttaggtct tgtaacacca tgattttaaa gatgttctgg caagataagt
     2161 ggagcttttg ggggtgaaag gtggagcttt tgggggtgaa aggtggagct tttgggggtg
     2221 aaaggtggag cttttggggg tgtaatccac agaaaaaggg ggttgcaaaa aaaaaacttc
     2281 cacccatatg ataagtggcg tacagtaaaa aaacgccacc aatagcaacg agcaagcgaa
     2341 atgtcagatc tgatagctta caaatcaaac gcccttatcg aggcaagcta caagctcact
     2401 ttgcaggaac agcgcttcct gctggtctgt atcagccgcc taaaatccgg agaagattcc
     2461 ccttcgccgg atgaacaaaa aaccatgacc atcacggctg cagagtttca tgatgccttt
     2521 cctgacatgg gacggcagca cgctgaagct aggctcaagg aagcgataga tcgcctctgg
     2581 gacaggtcag taatcatcaa gaacgaggaa aaacgagaag agttccgctg ggtgcagtac
     2641 cgggcgcagt atttcaaagg tgaggcgaaa gtagatatca ccttctccga tgccatcatg
     2701 ccgtatctga cacagctcaa ggggcagttt acgcgggtag tcgtgaagaa cgtctccagc
     2761 ctttccagca cctacagcat ccgcatttac gagctgctcc agcagttccg cagcaccggt
     2821 gacagaacga tagctatcga tgatttccga accatgcttg ccgttgaaga taaatatcaa
     2881 caattcaaag acttgaataa gatgataatc aagccagcca tcgccgaact gaacgaaaaa
     2941 agcgatctgg ttgtaactgt tgagacgatc aaaaaggggc gcacggttgt agccctgcat
     3001 tttcgcttca aggaagacaa acagatcaag atgacgatct aaaatcgatt ttaaggcacc
     3061 taaaacgctc cctgctgcgt tttttttgtg ttagtagtgc gaaggtacta ttgaagtgaa
     3121 aaattgcgtc aaaaacgctc tgatgcagcg aaaaaagccc ccccaatttt tgggggcgga
     3181 aaaacaaaac tatgcttgcg ttatgtgagt gtgcttcttg cattcatccc tgtcgatgaa
     3241 catcgaagaa catcgacgaa cataacacga tgttaaacaa aacaaaatat tgttcacatt
     3301 cactgtgacc aaccgcgatc atgtctcctc tcggtggtgt gtgttcgtgc atcttcctcg
     3361 cgctgccatt cctcccaggt acgattaaaa cccagcgagc ggaacagatg atccggctgt
     3421 ttttctggtg tgttgacggc agcaaaaagc ggtgcctcac gggttttcag atgaaactgc
     3481 atcagttctg gtgcaggtga tatgtggctg tctgcatcgt gatttacggc aacaccatac
     3541 cctgcatacc gtaacccctt atcggtcagc gcactgatga ccagatgcct gttatcggct
     3601 gagggaacgg caaacgcggg atacagcgta ccattaagcc ggataacacc gcccagagag
     3661 tcatccacgc ccatgaccag caaaagctga agctggcggg tttcccggtc gacagaactc
     3721 atgaccggca tcagcgtcgg tggcagacgt ccctgcataa aatccacctt ccttgccgct
     3781 ggtgatggca tggctggctg gcggtcttct ccaagacaga aagactccgg ccatgtcttc
     3841 ggctggcgga gattgcgggt atgttgcggc catgtctggc aaacctgcgt cagcagttgc
     3901 tcaaaggttg cagaggaata aacacgttgc agtggcggac gttggccgat ttcgcttcgg
     3961 tcacagatat aaccactcct gtcacgcatt aaatcaacac tctcaaagat tctggtgcgg
     4021 tatttctcca gctcgttccc ccagagcgta tattctccgt tccggttgtg aa
//
