LOCUS       CP056562                4783 bp    DNA     circular BCT 16-MAY-2022
DEFINITION  Enterobacter cloacae strain RHBSTW-00399 plasmid pRHBSTW-00399_3,
            complete sequence.
ACCESSION   CP056562
VERSION     CP056562.1
DBLINK      BioProject: PRJNA605147
            BioSample: SAMN15148601
KEYWORDS    .
SOURCE      Enterobacter cloacae
  ORGANISM  Enterobacter cloacae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Enterobacter; Enterobacter cloacae complex.
REFERENCE   1  (bases 1 to 4783)
  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 4783)
  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                     :: WTP4 T2-00399
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 107.045699158051x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/19/2020 02:10:01
            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)                     :: 5,160
            CDSs (total)                      :: 5,044
            Genes (coding)                    :: 4,890
            CDSs (with protein)               :: 4,890
            Genes (RNA)                       :: 116
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 154
            CDSs (without protein)            :: 154
            Pseudo Genes (ambiguous residues) :: 0 of 154
            Pseudo Genes (frameshifted)       :: 55 of 154
            Pseudo Genes (incomplete)         :: 84 of 154
            Pseudo Genes (internal stop)      :: 26 of 154
            Pseudo Genes (multiple problems)  :: 10 of 154
            ##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..4783
                     /organism="Enterobacter cloacae"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00399"
                     /isolation_source="Wastewater effluent sample"
                     /db_xref="taxon:550"
                     /plasmid="pRHBSTW-00399_3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(466..708)
                     /locus_tag="HV184_25755"
     CDS             complement(466..708)
                     /locus_tag="HV184_25755"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001713065.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein L"
                     /protein_id="QLW24147.1"
                     /translation="MALVRSGNKSKIFEADTKFNSVFDTEYKPGETCEYEGIYKCTGCG
                     KEVTIAGGKTIPPQNHHQHTPAQGNIRWQLFVYAQ"
                     /name="protein L"
     gene            895..1212
                     /locus_tag="HV184_25760"
     CDS             895..1212
                     /locus_tag="HV184_25760"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001183575.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="QLW24148.1"
                     /translation="MQQDHEHDDCRIQFRDDWLYQFYKYGKANRKIPTAISASLGRKLD
                     MLNAADKVGDLRSPPGNRFENLNPPLTGYSSIRVNEKYRLIFKWGENGVEDLYLDPHDY
                     R"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            1415..1771
                     /locus_tag="HV184_25765"
     CDS             1415..1771
                     /locus_tag="HV184_25765"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000075993.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="HigA family addiction module antidote protein"
                     /protein_id="QLW24149.1"
                     /translation="MSQATRKPSTVGDIILYEYLEPSGLKINDLAEMLNVHRNSASALV
                     NNNRKLSTDMAFRLAKAFDTTAKFWLNIQQSVDLWEVTSSPRLQEEIDRVIPAHEIIER
                     KHIVDSSEKKHAIA"
                     /name="HigA family addiction module antidote protein"
     gene            2864..3187
                     /locus_tag="HV184_25770"
     CDS             2864..3187
                     /locus_tag="HV184_25770"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /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="QLW24152.1"
                     /translation="MLTMWVTEGEHRRLLERCDGRPLAAWMRQTCLDEKPARTGKLPSL
                     SPALLRQLAGMGNNLNQIARRVNAGGGTGHDRVQIVAALMAIDAGLERLRHAVLEKGTD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3126..3890
                     /locus_tag="HV184_25775"
                     /pseudo=""
     CDS             3126..3890
                     /locus_tag="HV184_25775"
                     /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            3865..4356
                     /locus_tag="HV184_25780"
     CDS             3865..4356
                     /locus_tag="HV184_25780"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015060400.1"
                     /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="QLW24150.1"
                     /translation="MSSLLTLAKDLEQQSKAQQQSTGEMLKAAFSEHEQSVRAELSASA
                     RRISDAILAHEQSMSEAMEKNRRSVLRTAGRTWFTILMVSALLIGTSGSILWWQGQQIT
                     DNYTHLRQQEDTLAKMTARTWGVRYQESSDGRRFLILPPGMQTEAIPYDGTTWIRLKQE
                     "
                     /name="MbeB family mobilization protein"
     gene            4363..4578
                     /gene="mbeD"
                     /locus_tag="HV184_25785"
     CDS             4363..4578
                     /gene="mbeD"
                     /locus_tag="HV184_25785"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137422.1"
                     /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="QLW24151.1"
                     /translation="MTELEKQLLSALEQLQQDYSQRLDEWESAFAEWRSMCGLMQRENA
                     VLNERVSDLSTQVLSLSEQLRRLSGN"
                     /name="mbeD"
     Typing          2576..2749
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.0"
                     /coverage="100.0"
                     /evalue="1.21e-74"
     Typing          complement(2101..2609)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.51"
                     /coverage="96.0"
                     /evalue="0.0"
     Typing          2865..3181
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.453"
                     /coverage="99.0"
                     /evalue="1.45e-59"
     Typing          3178..4670
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="94.2"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 taaatcttat tgaatcattg cttaactgcc tgtatctggc ggcggagctg tgggactggc
       61 tggagaagca tttgtcggtt tttaaggcat tggcgcggat tttagtgtga ctttaacatc
      121 catgcatctg gctgcatgac tatgcaccag tgtaatattc agcggctgcg tttctggtgt
      181 tttttcgtta tgtctgtcgc cactttctcg cgtctggcac cagaaacgca gccaaccccg
      241 tttcagcggt gcgcccaacg gatgttatgg taaatcagta tcagctgcag atataaaaaa
      301 gccgccaggc tggcggcttg ctgttatttt cgtggctttc ctgcatctga gcgttttcct
      361 ctgacccttc cgtcattgtt acggtcacga ggttgagttc cgccgcctgg tttaggaacg
      421 acaacgtgtg ggttgagtgg tcgacgatct gccattttct atacctcact gagcataaac
      481 aaacaattgc caacgaatgt tcccttgcgc gggggtatgt tggtggtggt tttgtggtgg
      541 gattgttttc ccgcctgcga tagttacttc tttaccgcaa ccggtacatt tataaatccc
      601 ttcatattca catgtttctc ccggcttata ttcagtgtca aaaaccgagt taaacttcgt
      661 atctgcttca aaaatcttgc ttttgtttcc tgagcgaaca agagccatgc aacctccaaa
      721 ttatcattta ttttgcacac ctgcactgtg catgagtgca ttctacagca tagccattga
      781 ttgcacaagt gcactgtgct gttgtgcatt tgatatgttt gctgtactat atcggaggta
      841 agaaggtgat cgaaaaaatt gccaagttgc ggcaaaaatt gaggtaaaag aaaaatgcag
      901 caagatcatg aacatgatga ttgccgcatt cagtttcgag acgattggct ataccagttt
      961 tacaaatatg gtaaagccaa tcgaaagatt ccaactgcga ttagtgcttc attaggtcgc
     1021 aagctggata tgctgaatgc tgctgataaa gttggagatt tgcggtctcc cccgggaaac
     1081 cgatttgaga atctcaaccc tccattgaca gggtattcat ccatacgggt gaatgagaag
     1141 taccgcttga tatttaagtg gggtgaaaac ggagtcgagg atttgtatct cgatccacat
     1201 gattaccgat agataacagg tcgtggctgt tatcttataa aacaagtagg tgaggcgttc
     1261 cctcacctac attaaaatgt cattacaaat aatgattaat aaaaaaaatg acgtgactat
     1321 atttaagata attactcatc gctacagctg gtaatagacg aaatacttat cttcctcatc
     1381 taacagagag aagtaaaaaa tttaggagta aagcatgtcc caagcaacta gaaaaccatc
     1441 aactgtaggg gatattattc tttatgaata tctcgaacca agtggtttaa aaatcaatga
     1501 cttggctgaa atgttgaatg tgcatagaaa ctctgccagt gctttagtta acaataatag
     1561 aaagctgtct accgatatgg cttttaggtt ggctaaagcc ttcgatacca ctgcaaagtt
     1621 ctggctaaat atacagcagt ctgttgattt atgggaggtt actagtagcc ctcgattgca
     1681 agaagaaata gacagagtga ttcccgctca tgaaatcata gaaaggaaac acattgttga
     1741 tagttctgag aagaaacatg ctattgcatg atttttttta aaaaaatata agttatccct
     1801 caaaaagaag gcttctataa ctagaagcct tctttttgag ggataaaaac gctcatgtta
     1861 actttcttct tacgatcttc ttgagatccg tgctctgtac gcgtaatctc ttgctctgta
     1921 aacgaaaaaa ccgcctgggg aggcggtttt tcgaaggtta agtcagttgg ggaactgctt
     1981 aacctggtaa ctggcttcag cagagcgcag ataccaaata ctgtccttcc agtgtagccg
     2041 tagttaggcc accacttcaa gaactctgta gcaccgccta catacctcgc tctgctaatc
     2101 ctgttaccag tggctgctgc cagtggcgtt ttgtcgtgtc tttccgggtt ggactcaagt
     2161 cgatagttac cggaacaggc gcagcggtcg gactgaacgg ggggttcgtg catacagtcc
     2221 agcttggagc gaactgccta cccggaaccg agtgtcaggc gtggaatgag acaaacgcgg
     2281 ccataacagc ggaatgacac cggtaaaccg aaaggcagga acaggagagc gcacgaggga
     2341 gccatcaggg ggaaacgcct ggtatcttta tagtcctgtc gggtttcgcc accactgatt
     2401 tgagcgtcag attctgtgat gctcgtcagg ggggcggagc ctatggaaaa ccggctctgc
     2461 cgtggcctta tcgcttccct gttaagtttc ttcctggcat cttccaggaa atttccgccc
     2521 cgttcgtaag cccgcaccgc tcgccgcagc cgaacgaccg agcgcagcga gtcagtgagc
     2581 gaggaagcgg aatatatcct gtatcgcata ttctgctgac gcgccgttgc cgcctttttt
     2641 ctcctgccac atgaagcact tcactgattt ccgtatccgt gccaacatat taagccagta
     2701 tacactccgc tagcgctacg tgactggttc agggctgcgc cccgaaaccc gccaaaagcc
     2761 actgacgcgc ctgcggcttg tccaaccccg cgccgaccgg gaaaggcttt cccgcccgtc
     2821 ccggcgttat caggaggccg gtttgtcaga gaaacggaac aagatgctca ccatgtgggt
     2881 gacggagggc gagcaccggc ggctgcttga gcgctgcgac ggcaggccgc tggcggcgtg
     2941 gatgcggcag acctgcctgg acgaaaagcc tgcgcgcacc ggaaagctcc cctcactctc
     3001 gccggcgctg ctgcgccagc ttgccggtat gggcaataac ctgaaccaga tagcccgccg
     3061 tgttaacgcc ggcggcggca ccggccatga cagggtacag attgtggcgg cgctgatggc
     3121 catcgatgcc gggcttgagc ggctgcggca cgccgttctt gagaaaggaa cggacgatga
     3181 tcgttaaatt tcatccacgc ggtcgcggcg gtggcgccgg gccggtggac tatctgctgg
     3241 gtaaagaccg gcagcgtgaa ggcgccagcg tcctgcaggg gaagccggaa gaagtccggg
     3301 agctgattga cgcgtcgcct tacgtgaaga aatacacctc cggcgtactg tcgtttgcgg
     3361 aggccgatct gcctcccggc cagcgggaaa aactgatggc cagcttcgag cgggttctga
     3421 tgcccggact cgataaagat cagtacagca ttctgtgggt ggagcacgcg gacaaggggc
     3481 gtctggagct gaactttctg atccccaata ccgaactgct gaccggcagg cggctccagc
     3541 cgtactacga ccgcgccgac cggccgcgca tcgatgcctg gcagaccatc gtgaacggca
     3601 gactggggct gcatgacccg aacgcgccgg aaaaccgccg ggcgctggtc acgccgtccg
     3661 gactgccgaa aacgaagcag gaggccactg aagccatcac gcgcggactg ctgacccttg
     3721 cttcgtccgg ggagctgaaa aaccgtcagg acgtcactga ggcgctggaa cggtcaggtt
     3781 ttgaggtggt gcgcaccacg aaaagcagta tcagcattgc cgacccggac ggggggcgaa
     3841 acatccgact gaagggagcc atctatgagc agtcttttaa cgctggcgaa ggacttagag
     3901 cagcaatcga aagcgcagca gcagagtacc ggcgagatgc tgaaagccgc attcagcgag
     3961 cacgagcagt ctgtcagagc ggaactgagc gcaagcgcga ggagaatcag cgacgccatc
     4021 ctcgcacacg agcagagtat gagcgaggcg atggagaaaa accggcggag cgtactgcgg
     4081 actgccgggc ggacatggtt caccatcctg atggtgtcag cgctgctgat cggcacgagc
     4141 gggagcatac tgtggtggca ggggcagcag ataaccgaca attacacgca tcttcgtcag
     4201 caggaagata ccctggcgaa aatgactgcc cggacgtggg gagtgcgcta tcaggagagc
     4261 agcgacggcc ggaggtttct tatcctgccg cccgggatgc aaaccgaagc catcccctac
     4321 gacgggacga catggatccg cctgaaacag gagtagcgga aaatgacaga gctggaaaag
     4381 cagttgctga gcgcattaga gcagctacag caggactact cgcaaaggct ggacgaatgg
     4441 gagagcgcct tcgcggaatg gcggagcatg tgtgggctta tgcaacggga gaacgcggtg
     4501 ctgaacgagc gcgtgtcgga cttgagcacg caggtgctga gtttaagcga gcagctgcgc
     4561 cgcttgtccg ggaactgaat gccatcgagc tccggcagag ggagaatgag tatcagaaaa
     4621 cactggagct ggagcgccag ccgcagaaaa cctaccgcgg gccgacactt taaaccatcc
     4681 aggcagctga caacccgcac gaagaggggc tcttatttct cccgctaaat aggttcgtga
     4741 tcaaaaaggt cacgacttat tcaggagcgg gaaatgaagc tgt
//
