LOCUS       CP057955                6079 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHB08-C23 plasmid pRHB08-C23_3, complete
            sequence.
ACCESSION   CP057955
VERSION     CP057955.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148041
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 6079)
  AUTHORS   AbuOun,M., Jones,H., Stubberfield,E., Gilson,D., Shaw,L.P.,
            Hubbard,A.T.M., Chau,K.K., Sebra,R., Peto,T.E.A., Crook,D.W.,
            Read,D.S., Gweon,H.S., Walker,A.S., Stoesser,N., Smith,R.P.,
            Anjum,M.F. and On Behalf Of The Rehab,Consortium.
  TITLE     A genomic epidemiological study shows that prevalence of
            antimicrobial resistance in Enterobacterales is associated with the
            livestock host, as well as antimicrobial usage
  JOURNAL   Microb Genom 7 (10) (2021)
   PUBMED   34609275
REFERENCE   2  (bases 1 to 6079)
  AUTHORS   Shaw,L.P.
  TITLE     Direct Submission
  JOURNAL   Submitted (12-JUN-2020) Nuffield Department of Medicine, University
            of Oxford, John Radcliffe Hospital, Oxford OX3 9DU, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.7
            Assembly Name                     :: RH06 T1-C23
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 80.9459087646926x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 13:22:13
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 4.11
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 5,004
            CDSs (total)                      :: 4,887
            Genes (coding)                    :: 4,714
            CDSs (with protein)               :: 4,714
            Genes (RNA)                       :: 117
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 173
            CDSs (without protein)            :: 173
            Pseudo Genes (ambiguous residues) :: 0 of 173
            Pseudo Genes (frameshifted)       :: 65 of 173
            Pseudo Genes (incomplete)         :: 91 of 173
            Pseudo Genes (internal stop)      :: 50 of 173
            Pseudo Genes (multiple problems)  :: 30 of 173
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..6079
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHB08-C23"
                     /isolation_source="Pooled cattle faecal samples collected
                     from floor of farm"
                     /db_xref="taxon:562"
                     /plasmid="pRHB08-C23_3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(5343..6079,1..199)
                     /locus_tag="HVW24_24985"
     CDS             join(5343..6079,1..199)
                     /locus_tag="HVW24_24985"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011666805.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="QMP09195.1"
                     /translation="MSAALQYFEENLPLRPYHTDDLAFGLRISGKGRALLARYIQQNQP
                     HAQFWLVFDVDREGAAIDWSDRNAPAPNITVKNPVNGHAHLLYALNIAVRTAPDASVKA
                     LKYAAAVERSLCEKICADVNYSGLICKNPFHLEWQVMEWREEAYTLDELADYLDLSASA
                     RRSIDKHYGMGRNCHLFEMTRKWAYRAIRQGWPAFSQWLDAVIQRVEMYNASLPVPLSP
                     AECRAIGRSIAKYTHRNFTPETFAQYVADTHTPEIQAKRGRKGGIAKGEAYDDKRFMAL
                     CMLENGYSQKAIAAMLEVSTRTIRNWKSGK"
                     /name="replication initiation protein"
     gene            complement(393..791)
                     /locus_tag="HVW24_24990"
     CDS             complement(393..791)
                     /locus_tag="HVW24_24990"
                     /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="QMP09196.1"
                     /translation="MRISNIEWLKKRIGFIRKLGEQTARQRQIIDLLDNEAGLTEQERK
                     LLHVLATAEKNDLQAQESERKQAVQKRIEGKKQRRERNHRLFLAAGLLIEAGLVDTKTG
                     ELCYKKDRILQALKEIKYDLETSPNPDA"
                     /name="hypothetical protein"
     gene            968..1894
                     /locus_tag="HVW24_24995"
     CDS             968..1894
                     /locus_tag="HVW24_24995"
                     /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="QMP09197.1"
                     /translation="MATYHLSVKFGGKGQAANHADYIERKEKYRDRQDLEYSAHGNMPE
                     WARDNPSHFWQAADQFERANGSTYRELEIALPRELTAEQRLELVQDFVRQEAGERHAWS
                     FAIHNPKASIDGGEQPHAHIMMSQRVNDGIERTPEQYFRRYNARYPERGGAKKDSGSLT
                     LTQQKEQLRELRKRWEVKHNEHMRKHGFERGFIDCRTLKEQGIERRPEVHLGFEAAGRL
                     DDAQRHDIMQKRSEPDYSRHLEQARTVGHDIREWLDTPVKQHELVRRLQHDVAREHGFD
                     MRDRVSRQNRTEPERVKSPSRGFSMGF"
                     /name="MobA/MobL family protein"
     gene            1897..2430
                     /locus_tag="HVW24_25000"
     CDS             1897..2430
                     /locus_tag="HVW24_25000"
                     /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="QMP09198.1"
                     /translation="MASTEEKLLTLLLSVEHLQHTAMEQQKAVADSLAVARETLRGYRD
                     ISDGVAKQVRDEVRNEVQKLDVAGLIGERISQDFQRLEESVANMKANADALNRDIATIH
                     SNIVQEYNTLKGYSWKWLGGVSVAFLVMFCVLGWGMKTMLDRNYNATAAVYQKVVTLED
                     KLAEKPVTGKSRKN"
                     /name="hypothetical protein"
     gene            2651..4378
                     /locus_tag="HVW24_25005"
     CDS             2651..4378
                     /locus_tag="HVW24_25005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000012961.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin"
                     /protein_id="QMP09199.1"
                     /translation="MSGGDGRDHNSGAHNTGGNINGGPTGLGGNGGASDGSGWSSENNP
                     WGGGSGSGVHWGGGSGHGNGGGNGNSGGGSNSSVAAVAFGFPALAAPGAGTLGIAVSGE
                     ALSAAIADIFAALKGPFKFSAWGIALYGILPSEIAKDDPKMMSKIVTSLPAETVTNVQV
                     STLPLDQATVSVTKRVTDVVKDTRQHIAVVAGVPMSVPVVNAKPTRTPGVFHASFPGVP
                     SLTVSTVKGLPVSTNLPRGITEYKGRTAVPAGFTFGGGSHEAVIRFPKESGQKPIYVSV
                     TDVLTPAQVKQRQDEENRLQQEWNDTHPVEVAERNYEQARAELDQANKDVARNQERQAK
                     AVQVYNSRKSELDAANKTLADAKAEIKQFERFAREPMAAGHRMWQMAGLKAQRAQTDVN
                     NKKAAFDAAAKDKSDADAALGAALERRKQKENKEKDSKDKLDKESKRNKPGKATGKGKP
                     VGDKWLDDAGKDSGAPIPDRIADKLRDKEFKSFDDFRKKFWEEVSKDPELSKQFKDSNK
                     TNIQKGKAPFARKKDQVGGRERFELHHDKPISQDGGVYDMDNIRVTTPKRHIDIHRGK"
                     /name="colicin"
     gene            4381..4641
                     /locus_tag="HVW24_25010"
     CDS             4381..4641
                     /locus_tag="HVW24_25010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000412701.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="bacteriocin immunity protein"
                     /protein_id="QMP09200.1"
                     /translation="MELKHSISDYTEAEFLEFVKKICRAEGATEEDDNKLVREFERLTE
                     HPDGSDLIYYPRDDREDSPEGIVKEIKEWRAANGKPGFKQG"
                     /name="bacteriocin immunity protein"
     gene            4703..4846
                     /locus_tag="HVW24_25015"
     CDS             4703..4846
                     /locus_tag="HVW24_25015"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_072020761.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin release lysis protein"
                     /protein_id="QMP09201.1"
                     /translation="MKKITGIILLLLAVIILAACQANYIRDVQGGTVSPSSTAEVTGLA
                     TQ"
                     /name="colicin release lysis protein"
     BGC             1..6079
                     /name="RiPP-like"
                     /gene="RiPP-like"
                     /tool="antismash"
     Typing          5344..6079
                     /name="Col156"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.336"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          969..1891
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.052"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 acagtatgtg gctgatacgc acacgccaga aatacaggcc aagagaggca ggaaaggtgg
       61 catcgctaaa ggcgaagcct acgatgacaa gcgtttcatg gcgctatgta tgctggagaa
      121 tggatattct cagaaagcta ttgcggcgat gttggaggtt tctactcgaa ccattcgaaa
      181 ctggaaaagc ggaaaatagc ctatatcaga taacagcgcc tttctggcgt ttttttgagc
      241 cgtaggtctt ttgccgtttt tccccgttca gccctgcaat ggtgctgttt tccgcatgat
      301 tgtgctggta gtgctcgccg cagtctcatg accgagcgta gcgagcgaat gagcgaggaa
      361 gcaccaggga accggaacac ggatggaggc acttacgcgt ctgggtttgg ggatgtctcc
      421 agatcgtact taatttcctt aagtgcctgt aatatcctgt cttttttata gcatagctcg
      481 cctgtttttg tgtctaccag tcctgcttcg atcagtagcc cagccgcgag aaagagtcgg
      541 tgattgcgtt ctcgtcgttg tttttttccc tcgattcgtt tttggaccgc ctgttttcgt
      601 tcgctctcct gtgcctgtaa gtcgtttttt tccgctgttg ccagtacgtg gaggagtttg
      661 cgttcctgtt ctgtgagtcc tgcttcgttg tcgagcaggt caataatctg tctctgtcgt
      721 gcggtctgtt ctccgagctt cctgatgaat ccgatccgtt tcttcagcca ttcgatgttg
      781 ctgatgcgca tgttcgtggt gctccctggt gtttttttgc ggtgtgttgt ggtcgtgcag
      841 tatatcgctt gcggtcggcg ggtgcagggg gtatcttccg tgctaattcg taaaattaga
      901 aggaagcgca cttatatgtt tctctccttc gtcgagaaac agtgcgctcc tgcggagggc
      961 tgaaaccgtg gcaacctatc acctcagcgt taaatttggt ggcaaggggc aggctgcaaa
     1021 ccacgccgat tacatcgagc gcaaagagaa ataccgcgac cgtcaggatt tggaatattc
     1081 cgcacacgga aacatgccgg aatgggcgcg agataatccc tcacatttct ggcaggctgc
     1141 tgaccagttt gaacgtgcga acggttcgac ctatcgggaa cttgaaattg cattaccccg
     1201 tgaactgaca gcggaacagc gccttgaact ggtgcaggat tttgtacgtc aggaagctgg
     1261 cgaacggcac gcctggagtt ttgccattca caatccgaaa gcgagcattg acggcggcga
     1321 acagcctcat gcgcatatca tgatgagcca gcgtgtgaat gatggcattg aacgtacacc
     1381 ggaacagtat ttccggcgct ataacgccag gtatcccgag cggggaggtg cgaaaaagga
     1441 ttccggaagc ctgactctca ctcagcaaaa agagcagttg cgggaattgc gaaaacgctg
     1501 ggaggtgaag cacaacgaac atatgagaaa gcatggcttt gaaaggggct tcattgactg
     1561 ccggacgctg aaagaacagg gcattgaacg acgtcccgaa gtgcatctgg gttttgaagc
     1621 tgccggacgg cttgatgatg cccagcgtca tgacatcatg caaaaacggt ctgaaccgga
     1681 ctattcccgc catcttgaac aggcgcgaac ggtcgggcat gacatcaggg aatggctgga
     1741 cactccggtt aagcaacatg aactggtcag aaggctgcaa catgatgttg cgcgggagca
     1801 tggctttgac atgagagaca gagtgagcag acagaaccga actgaacctg aacgggttaa
     1861 atcaccgtca cgtggatttt ctatgggatt ctgaacatgg ccagcacaga agaaaaatta
     1921 ctcacgctcc tgttatcggt ggagcatctg caacataccg caatggagca acagaaagct
     1981 gttgctgatt ctctggctgt ggcaagggaa acacttcgcg gatatcggga tatttctgac
     2041 ggtgtggcaa aacaggtcag ggatgaagtc agaaacgagg tgcagaagct ggatgttgca
     2101 gggctgatag gtgagcgcat cagccaggat tttcagcggc tggaagagtc agtcgcaaac
     2161 atgaaggcaa acgcggatgc cctgaacagg gatattgcga caattcacag caatatcgtg
     2221 caggaataca acacccttaa agggtatagc tggaaatggc tgggtggggt gtcagtggct
     2281 tttctggtta tgttctgtgt gcttggatgg ggaatgaaaa caatgctcga caggaactac
     2341 aacgccacag cggcggtgta tcagaaagtt gtgacactgg aagataaact ggcggagaaa
     2401 cctgtcacgg gcaagagccg gaaaaactga cgcgcttcgc ttgtccaacg cctcacgacc
     2461 cgcgaaagga tttcgcgttc cgttcaccgt tttcatgagt gattcctccg aactgccaaa
     2521 aaatatcccc ccctgacttg acagaaaaaa taatggcgag tactttttga tctgtacata
     2581 aaaccagtgg ttttatgtac agtattaact atgtaattaa ttgttttaac gcttaaaaga
     2641 gggaattttt atgagcggtg gagatggacg cgaccacaac agtggcgcac ataacacagg
     2701 tggtaacatt aatggcggcc ctacggggct tggtggaaat ggtggggctt ctgacggctc
     2761 cggatggagt tcggaaaata acccatgggg tggcggttct ggtagtggtg ttcactgggg
     2821 aggtggctcc ggccatggca atggcggggg gaatggtaat tccggtggtg gcagcaattc
     2881 atccgtagca gcagtggcat ttggttttcc tgctttggca gctcctggtg ccggaacact
     2941 gggtatcgcc gtctctggtg aggctttatc tgcggcaata gcggatatct ttgcagccct
     3001 gaaaggtccg tttaaattca gtgcatgggg tattgcgctt tacggcattc tgccatctga
     3061 aatagcaaaa gatgacccga aaatgatgtc aaagattgtg acgtcattac cggcagaaac
     3121 agtaacaaat gttcaggtca gtacacttcc gctggaccag gcaactgtta gcgtgacaaa
     3181 acgtgtgacc gatgttgtga aggacacacg acagcatatt gccgtagttg caggtgtacc
     3241 tatgagtgtg cctgttgtga atgctaaacc aacacgtacc ccaggtgtat ttcacgcatc
     3301 atttcctggt gtcccttctc tgacagtcag cacggtcaaa ggtcttcctg tgtcaacaaa
     3361 ccttccccgt ggtattacgg agtataaggg ccggactgcc gttcctgcag gatttacctt
     3421 tggtggtggt tcacatgaag cggtgatccg tttcccgaaa gaaagtgggc agaagccgat
     3481 ttatgtatca gtgacagatg ttcttacccc tgcacaggta aaacaacgtc aggatgagga
     3541 aaatcgcctc cagcaggaat ggaatgacac acatcctgta gaagtggctg aacgcaatta
     3601 tgaacaggcc cgcgcagaac tggatcaggc taataaagat gttgccagaa accaggaacg
     3661 acaggctaaa gctgttcagg tttataattc tcgtaaaagt gaacttgatg cagcgaataa
     3721 aactcttgct gatgcaaagg ctgaaataaa acaattcgag cgatttgccc gagaaccaat
     3781 ggctgctggt caccgaatgt ggcaaatggc agggcttaag gcccagcggg cacagacgga
     3841 tgtaaataat aagaaggctg catttgatgc tgctgcaaaa gataagtctg atgctgatgc
     3901 tgcgttaggt gctgcgctgg aacgccgtaa gcagaaggaa aataaagaaa aggactctaa
     3961 ggataaatta gataaggaga gtaaacggaa taagccaggg aaggcgacgg gtaaaggaaa
     4021 accagttggt gataaatggc ttgatgatgc gggtaaagat tcaggagcgc caattcctga
     4081 tcgtattgct gataagttgc gtgataaaga atttaaaagt tttgacgatt tccggaagaa
     4141 attctgggaa gaagtgtcaa aagatcccga gcttagtaag caatttaaag acagtaataa
     4201 gacgaacatt caaaagggaa aagcaccttt tgcaaggaag aaagaccaag taggtggtag
     4261 ggaacgcttt gaattacatc atgataaacc aatcagtcag gatggtggtg tctatgatat
     4321 ggataatatc agagtgacca cacctaagcg acatattgat attcatagag gtaagtaaaa
     4381 atggaactga aacatagtat tagtgattat accgaggctg aatttctgga gtttgtaaaa
     4441 aaaatatgta gagctgaagg tgctactgaa gaggatgaca ataaattagt gagagagttt
     4501 gagcgattaa ctgagcaccc agatggttca gatctgattt attatcctcg cgatgacagg
     4561 gaagatagtc ctgaagggat tgttaaagaa attaaagaat ggcgagctgc taatggtaag
     4621 ccaggattta aacagggcta aaatatgaat gccggttgtt tatggatgaa tggctggcat
     4681 tctttcacaa caaggagtcg ttatgaaaaa aataacaggg attattttat tgcttcttgc
     4741 agtcattatt ctggctgcat gtcaggcaaa ctatatccgg gatgttcagg gcgggactgt
     4801 atccccgtca tcaacagctg aagtgaccgg attagcaacg cagtaacccg aaatcctctt
     4861 tgacaaaaac aaagcgtgtc aggctgattc tgatgcgctt ttttttgaaa tgtcacaaaa
     4921 attccatgcg ggagatgaga gctaaaatcc ccgtgcagaa ctttccaccc agggggagaa
     4981 aacttgtcat tttgacctgt tcgcccttcg gaacagtcga aatcgatcgc gcatcgcttt
     5041 cgtgcatagt tatgcaacgc cctgaaaacg attctgacgc gtttttctgg tttggcctgg
     5101 tgttttcttg tctttttgcg ttttttgcgc cagaaagcga ctgagggcgt tttaaggggg
     5161 gcgtacaacg ggagttatgg taaatggatc ggcttttcgg gaaggatcga caggatttgc
     5221 cgttgggtgt agtgtaagcg actgaaaaac aaacgcccct gaaatcatgt ccagatccgg
     5281 caagattcaa catgaaatgc agagggcgtg taggtcgcat aacccggaga gaatcgtaac
     5341 acatgagcgc cgcgcttcaa tacttcgaag aaaatttacc cctccgcccc tatcacacgg
     5401 atgatctcgc tttcggcctt cgtatctccg gtaaagggcg tgcgcttctt gcacggtata
     5461 tccagcagaa ccagcctcat gcacagttct ggctggtttt tgacgttgac cgcgaggggg
     5521 ctgcgattga ctggagcgac cggaacgccc ccgcgccgaa catcaccgtt aaaaatcctg
     5581 tgaacggaca cgctcacctg ctctacgcac tcaacatcgc cgtgagaacc gcgcctgatg
     5641 cctcggttaa ggcgctgaaa tatgccgcag cggttgaacg ttcgctgtgt gagaaaattt
     5701 gtgctgatgt gaactacagc ggcctgattt gcaaaaatcc gttccacctg gaatggcagg
     5761 tgatggagtg gcgagaggaa gcctataccc tcgatgaact ggctgattat ctcgatttga
     5821 gcgcctcagc gcgtcgtagc atcgataaac attacgggat ggggcgaaac tgccacctgt
     5881 tcgaaatgac gcgcaaatgg gcttacaggg cgattcgtca gggatggcca gcattctcac
     5941 agtggcttga tgcggtgatt cagcgtgtcg aaatgtacaa cgcatcgctt cctgttccgc
     6001 tttcaccagc tgaatgccgg gctattggca ggagtattgc gaaatacacg cacaggaact
     6061 tcacgccgga aactttcgc
//
