LOCUS       CP056804                5210 bp    DNA     circular BCT 13-MAY-2022
DEFINITION  Escherichia coli strain RHBSTW-00176 plasmid pRHBSTW-00176_5,
            complete sequence.
ACCESSION   CP056804
VERSION     CP056804.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148525
KEYWORDS    .
SOURCE      Escherichia coli
  ORGANISM  Escherichia coli
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Escherichia.
REFERENCE   1  (bases 1 to 5210)
  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 5210)
  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                     :: WTP1 T1-00176
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 49.6754890387248x
            Sequencing Technology :: Hybrid: Illumina and PACBIO_SMRT
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 02:24:55
            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)                     :: 5,408
            CDSs (total)                      :: 5,280
            Genes (coding)                    :: 5,034
            CDSs (with protein)               :: 5,034
            Genes (RNA)                       :: 128
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 101
            ncRNAs                            :: 5
            Pseudo Genes (total)              :: 246
            CDSs (without protein)            :: 246
            Pseudo Genes (ambiguous residues) :: 0 of 246
            Pseudo Genes (frameshifted)       :: 99 of 246
            Pseudo Genes (incomplete)         :: 137 of 246
            Pseudo Genes (internal stop)      :: 52 of 246
            Pseudo Genes (multiple problems)  :: 39 of 246
            ##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..5210
                     /organism="Escherichia coli"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00176"
                     /isolation_source="Freshwater sample from upstream of
                     wastewater treatment plant"
                     /db_xref="taxon:562"
                     /plasmid="pRHBSTW-00176_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(5012..5210,1..125))
                     /locus_tag="HV108_26960"
     CDS             complement(join(5012..5210,1..125))
                     /locus_tag="HV108_26960"
                     /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="QLZ05219.1"
                     /translation="MLTIRVTDDEHARLLERCEGKQLAVWMRRVCLGEPVARSGRLPTL
                     APPLLRQLAAIGNNLNQTARKVNSGQWSSGDRVQVVAALMAIGDELRRLRLAVREQGTR
                     DDS"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            190..381
                     /locus_tag="HV108_26965"
     CDS             190..381
                     /locus_tag="HV108_26965"
                     /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="QLZ05220.1"
                     /translation="MTKQEKTALNMARFIRSQTLTLLEKLNELDADEQADICESLHDHA
                     DELYRSCLARFGDDSENL"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1569..1958
                     /locus_tag="HV108_26970"
     CDS             1569..1958
                     /locus_tag="HV108_26970"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001679965.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QLZ05221.1"
                     /translation="MFKSSVKSITSSTILTLLIGCSSTETNKNIVYKVGGDSIILNKYC
                     ILKMYPSQSEKNKGVIIEVNTDSLCKKKLNEITSKNIGKPLISYFDGKVISQPAIIHSA
                     LNPTHYYQPVNDETTVMEIIKAYSK"
                     /name="hypothetical protein"
     gene            complement(2022..2306)
                     /locus_tag="HV108_26975"
     CDS             complement(2022..2306)
                     /locus_tag="HV108_26975"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000625497.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QLZ05222.1"
                     /translation="MISQNVWAPPFFFGPWVELENHTGDIAYTVYFDTLSNVPGPFIAF
                     IWYAPNGPRTVNVIGPASYQISCKGAGVDKIKFKSVSGTGQIIHVYTTL"
                     /name="hypothetical protein"
     gene            complement(2324..2521)
                     /locus_tag="HV108_26980"
     CDS             complement(2324..2521)
                     /locus_tag="HV108_26980"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001335786.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QLZ05223.1"
                     /translation="MKEEKVLLHRFLFVVRNKNGCELSCSADLMGTRDDVYKYFSDSVS
                     GLDVELIDVSCESEWEEHSH"
                     /name="hypothetical protein"
     gene            2733..3029
                     /locus_tag="HV108_26985"
     CDS             2733..3029
                     /locus_tag="HV108_26985"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001679964.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QLZ05224.1"
                     /translation="MSKTKSGRHRLSKTDKRLLAALIAAGYEERTARDLIQKHVYTLTQ
                     ADLRHLVSEISNGVGQSQAYDAIYQARRIRLARKFLNGKKPEEGLNAWKGDLP"
                     /name="hypothetical protein"
     gene            complement(3576..3809)
                     /gene="mbeD"
                     /locus_tag="HV108_26990"
     CDS             complement(3576..3809)
                     /gene="mbeD"
                     /locus_tag="HV108_26990"
                     /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="QLZ05225.1"
                     /translation="MTELERHLLNALEQLQQDYMQRLNEWESAFVELQKMFSLTQRDNA
                     MLNERVMKLSQQVQHLSERTERLSQLYSENRR"
                     /name="mbeD"
     gene            complement(3816..4334)
                     /locus_tag="HV108_26995"
     CDS             complement(3816..4334)
                     /locus_tag="HV108_26995"
                     /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="QLZ05226.1"
                     /translation="MSNLLQTGAEFEKKLKERAESTETILNDEFRKLEKSVSKAVTSNE
                     TKIKDAIALFTASTEESLKKHREGVKEAMMQHRKDVLKLAGNTGMMLLGMVIFLFTVSC
                     GTLWYLGGMIQANLEDIRKQEETLQKLNAKTWGVEFVQDGNRKFLVLPYGKSAEVIPHQ
                     GKDWVQLME"
                     /name="MbeB family mobilization protein"
     gene            complement(4312..5070)
                     /locus_tag="HV108_27000"
                     /pseudo=""
     CDS             complement(4312..5070)
                     /locus_tag="HV108_27000"
                     /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"
     Typing          complement(467..554)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="6.86e-39"
     Typing          565..1121
                     /name="rep_cluster_2350"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(4..158)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.077"
                     /coverage="99.0"
                     /evalue="1.38e-25"
     Typing          complement(3473..5022)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.363"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 agcctcccgg aacgggcaac cggctcaccc aggcagaccc gccgcatcca taccgccagt
       61 tgtttaccct cacagcgttc cagtaaccgg gcatgttcat catcagtaac ccgtatcgtg
      121 agcatcctct tgcgtttcat cggtatcatt acccccatga acagaaatcc cccttacacg
      181 gaggcatcag tgactaaaca ggaaaaaacc gcccttaaca tggcccgctt tatcagaagc
      241 cagacattaa cgctgctgga gaagctcaac gaactggacg cggatgaaca ggcagatatc
      301 tgtgaatcgc ttcacgacca cgccgatgag ctttaccgca gctgcctcgc gcgcttcggg
      361 gatgacagtg aaaacctctg acatatgcag ctcccggaga cggtcacagc ttgcctgtga
      421 gcggatgccg ggagcagaca agcccgccag ggcgcgtcag ggtgttttag cgggtttcgg
      481 ggcgcagccc tgaaccagtc acgtagcgat agcggagtgt atactggctt aaccatgcgg
      541 catcagtgcg gattgtatga aacgtgcgcc ataccgggtg tgaaatgccg cacagatgcg
      601 taaggagaaa atgcacgtcc aggcgctttt ccgcttcctc gctcactgac tcgctacgct
      661 cggtcgttcg gctgcggcga gcggtatcta ctcactcaaa aacgaaatgc tgttatccac
      721 agaatcaggg gataacaccg gaaaaaacat gtgagcaaaa gaccaggaac aggaagaagg
      781 ccgcgccgct ggcgtttttc cataggctcc gcccccctga cgagcatcac aaaaatcgac
      841 gctcaagtca gaggtggcga aacccgacag gacttaaaga taccaggcgt ttccccccgg
      901 aagctccctc gtgcgctctc ctgttccgac cttaccgttt accggatacc tgtccgcctt
      961 tctcccttcg ggaagcgtgg cgctttctca tagctcacgc tgtaggtatc tcagttcggt
     1021 gtaggtcgtt cgctccaagc tgggctgtgt gcacgaaccc cccgttcagc ccgaccgctg
     1081 cgccttatcc ggtaactatc gtcttgagtc caacccggta agacacgact taacgccact
     1141 ggcagcagcc attggtaact aaaaagtgga tttagatacg cagaactctt gaagttgaag
     1201 ccttatagcg gctacactga aaggacatct tttggtatct gtgctccact taagccagct
     1261 acccggttag gtaatctgcc aggattagct aaccttcgaa aaaccacctg ccagggtggt
     1321 tttttcgttt acaggcagca gattacgcgc agaaaaaaag gatctcaaga agatcctttg
     1381 atcttttttt ctctaaactg caatcccatc agttcaggag agaaagatag tataattgcc
     1441 ctctcttata tggaaccacc attcaatcac atcatgggga taatataagt gaaaacgttc
     1501 gcattgttta tttttacgtg tatatgtatt tatagattgg aattttaaca aaataaaatg
     1561 gagttaatat gttcaaatca tcagtaaagt caataacatc gagtactata ctgaccttac
     1621 ttataggatg ttcaagtact gaaacaaaca aaaacattgt ttacaaagtt ggtggtgaca
     1681 gcatcattct gaataaatat tgcatactta aaatgtaccc ttcccaatca gaaaaaaaca
     1741 aaggcgtcat aatagaagta aacacagata gtttatgtaa gaaaaaacta aacgaaataa
     1801 ctagtaaaaa tatagggaaa cccctgattt catattttga tggaaaagta atatcccaac
     1861 ctgcaatcat tcattctgca ctaaatccaa cccattatta tcaacctgtg aacgatgaaa
     1921 caacagtgat ggaaatcata aaagcatatt caaaataata ttaatagata taatcctgct
     1981 taaggtatag cttaggcagg attatattta ttcagctctt attataaggt agtgtataca
     2041 tgaataatct gccctgtccc actgacactt ttaaatttaa ttttatcaac accagcgccc
     2101 ttgcaagaga tctgataaga tgctggacca ataacgttaa ctgttcttgg cccattaggg
     2161 gcataccaga taaaagcaat aaatggaccg ggtacattag acaatgtatc aaaatagaca
     2221 gtgtacgcga tatcaccagt atgattttca agttcaaccc aaggaccaaa aaagaaagga
     2281 ggagcccaaa cattttgaga aatcatataa tctcctgatt agttcaatgc gaatgttctt
     2341 cccattcact ctcgcaagaa acatctataa gctcaacatc tagcccacta acagaatcag
     2401 agaaatactt ataaacatca tcccttgttc ccataaggtc tgccgaacat gatagttcac
     2461 aaccattctt attcctaact acaaataaga aacggtgaag caatactttt tcttctttca
     2521 ttttatccct ccctttattt acacagaata tactgtatat ataaatacta gttttatata
     2581 cagtataaat tacgccgcat tatttttcct gtcaatgata tgaattttca tttttgtgat
     2641 ctgaatcacc cttataaaaa tcaggaaggg aagattcgca gcagaaaaac agcaccggat
     2701 aacatcagga gaaaaaacag agaggagata acgtgagcaa aacaaaatct ggtcgccacc
     2761 gactgagcaa aacagacaaa cgcctgctgg ctgcacttat cgctgccgga tacgaagagc
     2821 ggacagcccg tgacctcatc cagaaacacg tttacacact gacacaggcc gacctgcgcc
     2881 atctggtcag tgaaatcagt aacggtgtgg gacagtcaca ggcctacgat gcgatttacc
     2941 aggcaagacg cattcgtctc gcccgtaaat tcctgaacgg aaaaaaaccg gaagaagggc
     3001 tgaacgcctg gaagggtgat ttaccataat cacttattgt acgcaccgcc gaaacgcgtt
     3061 cggtgcgatc acggcagcag acaggtaaaa atggcaacaa accacccgga aaactgccgc
     3121 gatcgcaccc ggtaaatttt aaccacatgc atacctatgc agccaggtga atcacgcagg
     3181 aattgccagt cagagaccgc tgaaacggat ttttttcata ctttcggaag cgaagaagac
     3241 ggggatttga gcaggaaaac agaagttcag gggaatgagc gcgatctggc aatagaggca
     3301 aaaacacgac tatgaaagac acaccagaat cgcgcccgta tgcgttttaa cgcgttcctg
     3361 tgttttcagc aaggtttatg actgaagcgc gttcccggtg ccccgaacca accattatcc
     3421 caaaaaatgc accggaaacg cgctgacaac attttagcct gtctctgatt accatcccag
     3481 cgaagggcca tccagtgtcc gttcctgtat ttccagctgg cgctcacgct ccagggataa
     3541 ctcatgttcg cgttcctgta tcagccgttc gtcccttatc tcctgttctc gctgtataac
     3601 tggctcaagc gttctgtccg ctcgctcaag tgctgcacct gctgactcaa cttcatgacc
     3661 cgctcgttca gcatcgcgtt gtcccgttgc gtaagcgaaa acattttctg caattccacg
     3721 aaggcgctct cccattcgtt cagccgctgc atatagtcct gttgcagttg ctctaatgcg
     3781 ttcagcaaat gtctttccag ctccgtcact ctgtgtcact ccatcagttg tacccagtcc
     3841 ttcccctgat ggggaatcac ctctgctgat ttcccgtacg gaaggaccag aaatttcctg
     3901 ttcccgtcct gtacgaactc cacgccccat gtcttcgcgt tcagtttctg caatgtctct
     3961 tcctgcttcc tgatatcttc caggttcgcc tgtatcatcc cgccaagata ccagagcgtc
     4021 ccgcaactca cggtaaacag gaaaatgacc atccccagta acatcatgcc cgtattccct
     4081 gccagcttta acacgtcctt cctgtgctgc atcatcgcct ctttcacccc ttcccggtgc
     4141 tttttcagtg attcctctgt cgaagctgtg aacagggcta tagcgtcttt gattttcgtc
     4201 tcgtttgatg tcacagcctt gcttacagat ttttcgagct tcctgaactc gtcgttcagt
     4261 attgtctctg tagattcggc tctctctttc agctttttct cgaactccgc gcccgtctgt
     4321 aaaagattgc tcataaaatg ctcctttcag cctgatattc ttcccaccgt tcgggtctgc
     4381 aatgctgata ctgcttcgcg tcaccctgac cacttcaagc cctgcctctg tgagcgcctg
     4441 aatcacatcc tgacggcctt ttatctcccc gacatgataa agagcgtcta tcccgcgtgt
     4501 gacgctctct gcaagcgcct gtttcgtttc cggcaggcta tcagagagag tcagtatccg
     4561 gcggttctcc ggggcgttgg ggtcatgcag cccgtaatgg tgattcacca gcgtctgcca
     4621 ggcatcaatt ctcggcctgt ctgcccggtc gtagtacggc tggaggcgtt ttccggtctg
     4681 tagctccatg ttcggaatga caaaattcag ctcaagccgt cccttgtcct ggtgctccac
     4741 ccacaggatg ctgtactgat ttttttcgag accgggcatc agtacacgct caaagctcgc
     4801 catcaccttt tcacgtcctc ccggtggcag ctccttctcc gcgaacgaca gcacaccgga
     4861 cgtgtatttc ttcgcaaatg gcgtggcatc gatgagttcc cgtacttctt ccggattacc
     4921 ctgaagcacc gttgcccctt cccggttacg ctcccttccc agcaggtaat caaccggacc
     4981 actgccacca ccttttcccc gggcatgaaa cttaactatc atcccgcgtc ccctgttccc
     5041 tgacggccag acgcaaccgg cgcagctcat ccccgatggc catcagtgcg gccaccacct
     5101 gaacccggtc gccggaagac cactgtccgc tgttcacctt acgggctgtc tggttcaggt
     5161 tattcccgat ggctgccagc tgacgcagta acggcggtgc cagtgtcggc
//
