LOCUS       CP056319                5444 bp    DNA     circular BCT 16-MAY-2022
DEFINITION  Escherichia coli strain RHBSTW-00822 plasmid pRHBSTW-00822_5,
            complete sequence.
ACCESSION   CP056319
VERSION     CP056319.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148703
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5444)
  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 5444)
  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                     :: WTP5 T3-00822
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 118.141900354428x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/18/2020 19:50:44
            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)                     :: 5,197
            CDSs (total)                      :: 5,082
            Genes (coding)                    :: 4,923
            CDSs (with protein)               :: 4,923
            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)              :: 159
            CDSs (without protein)            :: 159
            Pseudo Genes (ambiguous residues) :: 0 of 159
            Pseudo Genes (frameshifted)       :: 64 of 159
            Pseudo Genes (incomplete)         :: 94 of 159
            Pseudo Genes (internal stop)      :: 30 of 159
            Pseudo Genes (multiple problems)  :: 25 of 159
            ##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..5444
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00822"
                     /isolation_source="Freshwater sample from downstream of
                     wastewater treatment plant"
                     /db_xref="taxon:562"
                     /plasmid="pRHBSTW-00822_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(5320..5444,1..679)
                     /locus_tag="HV286_25935"
     CDS             join(5320..5444,1..679)
                     /locus_tag="HV286_25935"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000510993.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QLT51862.1"
                     /translation="MGIFSQIGSALLNCISKPVDALCEWAKEPLKDREYRREEASKESE
                     HKRNMDVLTAKKRVEHELRMSELNAEYELREKEKTLEVDLEVRRVREIEKAVAEIQEWR
                     KSQELERMERTTAAIARYKEQLTKLNIEVINSIGNMQLDLKERAQKFVYEKAVQYKRLQ
                     DEATEEAMNDLIRIEEKFGDNERAKDILIRAVDTKMGNVIDTSTRFLEELNRDIVSLNQ
                     SIDRLTNQGQKFIESHLERFHIVDATSSLYITGDEKERLLLKNIN"
                     /name="hypothetical protein"
     gene            complement(1811..2002)
                     /locus_tag="HV286_25940"
     CDS             complement(1811..2002)
                     /locus_tag="HV286_25940"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000165985.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="QLT51863.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGGDGENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2067..2390
                     /locus_tag="HV286_25945"
     CDS             2067..2390
                     /locus_tag="HV286_25945"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000956000.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="QLT51864.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRICLGEPVARSGKLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIERELRSLRQVVREHGAR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2368..3090
                     /locus_tag="HV286_25950"
                     /pseudo=""
     CDS             2368..3090
                     /locus_tag="HV286_25950"
                     /inference="COORDINATES: protein motif:HMM:NF015397.1"
                     /note="incomplete; partial on complete genome; missing
                     C-terminus; Derived by automated computational analysis
                     using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            3068..3586
                     /locus_tag="HV286_25955"
     CDS             3068..3586
                     /locus_tag="HV286_25955"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001447511.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="QLT51865.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTETMLNDEFSKLEKSVSKAVTSNE
                     TKIKDAIALFTTSTEESLEKHREGVKEAMMQHRKDVLKLAGNTGMMLLGMVIFLFTVSG
                     GTLWYLGGRIQANLEEIRIQEETLQKLNAKTWGVEFVQDGRRKFLVIPQGKSATVIPYQ
                     GKDWVQLTE"
                     /name="MbeB family mobilization protein"
     gene            3593..3847
                     /gene="mbeD"
                     /locus_tag="HV286_25960"
     CDS             3593..3847
                     /gene="mbeD"
                     /locus_tag="HV286_25960"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137438.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="QLT51866.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLNEWESAFVELQKMFSLTQRDNA
                     MLNEQVMQLSQQVQHLSERTERLSERTERLSQLYSENRR"
                     /name="mbeD"
     gene            4264..4791
                     /locus_tag="HV286_25965"
     CDS             4264..4791
                     /locus_tag="HV286_25965"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001418870.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="nickel transporter"
                     /protein_id="QLT51868.1"
                     /translation="MAKEFDVETKGKRTYSMNNDMSDLYNVISRAVEASGADHSINEKL
                     TNVLKRELVDYVSIAHLKTKLSVLYEFEKNYLQLIAEYKEEIKFASSLQEDLRKERAKF
                     FSETLKEVHQTLNESQVDNEVASKWIKELVGSYTKSLDLSGGLVEEHTLDTIACIRAEA
                     KLNKPSIEPGNN"
                     /name="nickel transporter"
     gene            4794..5333
                     /locus_tag="HV286_25970"
     CDS             4794..5333
                     /locus_tag="HV286_25970"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000897048.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QLT51867.1"
                     /translation="MAGGRHINSLLYVLVAILERKVNDFKLSSSELPEILAALREAREC
                     LVSRSINEDPQLYSALFLYEKNEGLLSLSFEREYSIFINSNLECILRKVSDIKDKKQGK
                     LQKIMNEFVRFKYSSSDSCADLLFLSGKLEQIRKIYEVFDRDRNRLEFLNYMMKKERVI
                     FEREFERLLGEKNGDF"
                     /name="hypothetical protein"
     Typing          1649..1730
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.795"
                     /coverage="100.0"
                     /evalue="6.23e-34"
     Typing          complement(1080..1625)
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.255"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          2381..3951
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.603"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ggagtctgaa cataagcgca acatggatgt cttgacggcc aagaaacgtg ttgaacatga
       61 actcagaatg agtgaattga atgctgaata tgagctgaga gaaaaagaga aaactcttga
      121 agttgatcta gaggttcgtc gcgttcgcga aatagaaaaa gcagtagctg agatccagga
      181 atggagaaag tcacaggaac ttgagaggat ggagcgaaca acagcagcta ttgcacgtta
      241 caaggagcaa ttaacgaaat taaatataga agtgattaac tctattggga acatgcagct
      301 tgatttaaag gagcgcgcac agaaatttgt ctatgagaaa gctgtacaat ataagcgcct
      361 gcaagatgaa gcaactgaag aggctatgaa tgatcttata aggattgagg aaaagtttgg
      421 tgataatgaa agagctaaag atattttaat tcgtgcagtt gatactaaga tggggaatgt
      481 tattgatacg tcaactcggt ttttggaaga attaaataga gatattgtta gtttaaacca
      541 aagtattgat aggctgacta atcaaggaca aaaattcatt gaaagtcatt tggagcgttt
      601 tcatattgtt gatgcgacat cttctttata tattacaggt gatgagaaag aacgattgtt
      661 gctgaaaaat attaattagt attttgtgag taatagcgat cattattttt aatggtcgca
      721 ttgtttgttc ttgcggttgc taatcattag tttttgtctt gtggttgaaa actgagcgct
      781 atggctatga cctgggagtg ggagtgaaaa gattcaagga tcctcttgtg atcctttttt
      841 tctgcgcgta atctgctgcc tgtaaacaaa aaaaccaccg ctaccaacgg tggtttgttt
      901 gccggaatct agagctacca actctttctt ccgaaggtaa ctggcttggt ggagcacaga
      961 taccaaatac tgtccttcta gtgtagccgc agttaggcca ccacttcaag aactcttaat
     1021 atctcaatcc accttgtcca gttaccagtg gctgctgcca gtggcgcttt gtcgtgtctt
     1081 accgggttgg actcaagacg atagttaccg gataaggcgc agcggtcggg ctgaacgggg
     1141 ggttcgtgca cacagcccag cttggagcga acgacctaca ccgaactgag ataccaacag
     1201 cgtgagctat gagaaagcgc cacgcttccc gaagggagaa aggcggacag gtatccggta
     1261 agcggcaggg tcggaacagg agagcgcacg agggagcttc cagggggaaa cgcctggtat
     1321 ctttatagtc ctgtcgggtt tcgccacctc tgacttgagc gtcgattttt gtgatgctcg
     1381 tcaggggggc ggagcctatg gaaaaacgcc atcggcgtgg cctttctccc ggcctttgcc
     1441 ttttgcgcac atgttctttc cggcgttatc ccctgattct gtggataacc gtattaccgc
     1501 ctttgagtga gctgataccg ctcgccgcag ccgaacgacc gagcgtagcg agtcagtgag
     1561 cgaggaagcg gaagagcgtc ggaagctgca ttttctcctt acgcatctgt gcggcatttc
     1621 acacccggca tggcgcactt ttcatacaat ctgcactaat gccgcatggt taagccagta
     1681 tacactccgc tatcgctacg tgactggttc agggcttcgc cccgaaaccc cctgacgcgc
     1741 cctgacgggc ttgtctgctc ccggcatccg ctcacagaca agctgtgacc gtctccggga
     1801 gctgtatgtg tcagaggttt tcaccgtcac ccccgaagcg tgcgaggcag ctgcggtaaa
     1861 gctcgtcggc gtggtcgtga agtgattcac aaatatcggc ctgttcatct gcgtccagtt
     1921 cgttgagctt ctccagcagc gttaatgtct ggcttcttat aaagcgggcc atgttaaggg
     1981 cggttttttc ctgtttagtc actgatgcct ccgtgtaagg ggggatttct gttcatgggg
     2041 taatgatacc gatgaaacgc gagaggatgc tcacgatacg ggttactgat gatgaacatg
     2101 cacggttact ggaacgctgt gagggtaaac agctggcggt atggatgcgg cggatctgcc
     2161 tgggtgagcc ggttgcccgt tccgggaagc tgccgacact ggcaccgccg ttactgcgcc
     2221 agctggctgc catcgggaat aacctgaatc agacggcgag gaaggtgaac agcgggcagt
     2281 ggtcttccgg tgaccgggtt caggtggtgg ccgcactgat ggccatcgag agagagttgc
     2341 gcagcttacg gcaggtcgtc agggaacatg gagcgcggga tgatagttaa gtttcatgcc
     2401 aggggaaaag gcggtggcag tggtccggtt gattacctgc tgggaaggga gcgtaaccgg
     2461 gaaggggcaa cggtgcttca gggtgatccg gaagaagtcc gggaactcat cgatgccacg
     2521 ccatttgcga agaaatacac gtcaggtgtt ctgtcgttcg cggagaagga gctgccgccg
     2581 ggagggcgtg aaaaagtgat ggcgagcttt gagcgtgtac tgatgcccgg tctcgaaaaa
     2641 aatcagtaca gcatcctgtg ggtggagcac caggacaagg gacggcttga gctgaatttt
     2701 gtcattccga atatggagct acagaccgga aaacgcctcc agccgtacta cgaccgggca
     2761 gacaggccga gaattgatgc ctggcagaca ctggtgaatc accattacgg gctgcatgac
     2821 cccaacgccc cggagaaccg ccggatactg actctctctg ataacctgcc ggaaacgaaa
     2881 caggcgcttg ctgagagcgt cacacgcggg atagacgctc tttatcatgt cggggagata
     2941 aaaggccgtc aggatgtgat tcaggcgctc acagaggcgg ggcttgaagt ggtcagggtg
     3001 acgcgaagca gtatcagcat tgcagacccg aacggtggga agaatatcag gctgaaagga
     3061 gcattttatg agcaatcttt tacagacggg cgcggagttc gagaaaaagc tgaaagagag
     3121 agccgaatct acagagacaa tgctgaacga cgagttcagc aagctcgaaa aatctgtaag
     3181 caaggctgtg acctcaaacg agacgaaaat caaagacgct atagccctgt tcacaacgtc
     3241 gacagaggaa tcgctggaaa aacaccggga aggggtgaaa gaggcgatga tgcagcacag
     3301 gaaggacgtg ttaaagctgg cagggaatac gggcatgatg ttactgggga tggtcatttt
     3361 cctgtttacc gtgagtggcg ggacgctctg gtatcttggc gggcggatac aggcgaacct
     3421 ggaagaaatc aggatacagg aagaaacatt gcagaaactg aacgcgaaga catggggcgt
     3481 ggagtttgtg caggacggga gaaggaaatt tctggtcatc ccgcagggga aatcggcaac
     3541 ggtgattccc tatcagggga aggactgggt acaactgacg gagtgacaca gagtgacgga
     3601 gctggaaaga catttgctga acgcattaga gcaactgcaa caggactata tgcagcggct
     3661 gaacgaatgg gagagcgcct tcgtggaatt gcagaaaatg ttttcgctta cgcaacggga
     3721 caacgcgatg ctgaacgagc aggtcatgca gttgagtcag caggtgcagc acttgagcga
     3781 gcggacagaa cgcttgagcg agcggacaga acgcttgagc cagttataca gcgagaacag
     3841 gagataaggg acgaacggct gatacaggaa cgcgaacatg agttatccct ggagcgggaa
     3901 cgccagctgg aaatacagga acgcacactg gatggtcctt cactgggatg gtgaaactat
     3961 gaaaaatggc aggttaagtg gattaagacg ggctaatgtg gtctgtacca tctggttgca
     4021 taggtattca tgcggttaaa atttatcagg cgcgatcgcg gcagtttttc gggtggtttg
     4081 ttgccatttt tacctgtctg ctgccgtgat cgcgctgaac gcgttttagc ggtgcgcgta
     4141 atgcgacgtt atggtaaata gatgagttag gcctaagtca tgacagataa aacgaccgat
     4201 attaaaatgg ctttagaaaa catgatcaga tttcgtgaca ctatagagag attgggaggt
     4261 tctatggcga aagagtttga tgttgagacc aaaggaaaac gtacttattc tatgaataac
     4321 gatatgagtg atttatataa tgtaatatca cgggctgttg aagcgtctgg tgccgatcat
     4381 tcaattaatg aaaaattgac aaatgtcttg aaaagagaat tagttgatta tgtcagcatt
     4441 gcgcatctaa aaaccaaatt gtctgtatta tatgagtttg aaaagaatta tttgcagctt
     4501 atcgcagaat ataaggaaga aataaaattt gcttcctctt tgcaagagga tttacgtaaa
     4561 gaacgtgcta aattcttttc tgagacatta aaagaggttc atcaaactct aaatgaatct
     4621 caagttgata atgaagtggc atcaaaatgg attaaagaac ttgttggtag ttataccaaa
     4681 agcttggatc taagcggagg ccttgttgaa gagcatacat tagatacaat tgcttgtatt
     4741 cgcgctgagg ctaaattaaa taaaccatct attgagccgg gcaataacta attatggccg
     4801 ggggtagaca tataaatagt ttgctttatg ttcttgtggc tatattagaa cgtaaagtga
     4861 atgactttaa attgtcttcg tcggaacttc ctgagatatt ggctgcttta cgagaggcaa
     4921 gggaatgcct tgtatcgcgc agcatcaatg aagatcctca gttatattcg gcattatttt
     4981 tatatgaaaa aaatgaaggg ttgctaagtc tttcatttga gagagaatac tctattttta
     5041 ttaactccaa tttagagtgc atattgagga aagtttctga tataaaagat aaaaagcagg
     5101 gtaaactgca aaaaataatg aatgaatttg tgaggtttaa atattcaagc agcgattctt
     5161 gtgcggatct tttgtttttg agtggtaaac ttgaacagat acgtaaaata tatgaagtct
     5221 ttgataggga tagaaataga cttgaatttc ttaactatat gatgaagaaa gaacgtgtta
     5281 tttttgaaag agagtttgaa cggcttttag gtgaaaaaaa tggggatttt tagtcagatt
     5341 ggtagcgctt tgcttaattg tattagtaag cctgttgatg cactctgtga atgggctaaa
     5401 gaaccattga aagataggga atatagaaga gaggaggctt caaa
//
