LOCUS       NZ_CP056733             5259 bp    DNA     circular CON 15-APR-2024
DEFINITION  Enterobacter hormaechei strain RHBSTW-00316 plasmid pRHBSTW-00316_7,
            complete sequence.
ACCESSION   NZ_CP056733
VERSION     NZ_CP056733.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148572
            Assembly: GCF_013742375.1
KEYWORDS    RefSeq.
SOURCE      Enterobacter hormaechei
  ORGANISM  Enterobacter hormaechei
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Enterobacter; Enterobacter cloacae complex.
REFERENCE   1  (bases 1 to 5259)
  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 5259)
  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                     :: WTP2 T1-00316
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 104.967439230937x
            Sequencing Technology :: Hybrid: Illumina and PACBIO_SMRT
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_013742375.1-RS_2024_04_14
            Annotation Date                   :: 04/14/2024 20:50:07
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 4,917
            CDSs (total)                      :: 4,801
            Genes (coding)                    :: 4,694
            CDSs (with protein)               :: 4,694
            Genes (RNA)                       :: 116
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 8
            Pseudo Genes (total)              :: 107
            CDSs (without protein)            :: 107
            Pseudo Genes (ambiguous residues) :: 0 of 107
            Pseudo Genes (frameshifted)       :: 36 of 107
            Pseudo Genes (incomplete)         :: 66 of 107
            Pseudo Genes (internal stop)      :: 24 of 107
            Pseudo Genes (multiple problems)  :: 17 of 107
            Pseudo Genes (short protein)      :: 1 of 107
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP056733.1.
            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..5259
                     /organism="Enterobacter hormaechei"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00316"
                     /isolation_source="Wastewater influent sample"
                     /db_xref="taxon:158836"
                     /plasmid="pRHBSTW-00316_7"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            191..1255
                     /locus_tag="HV155_RS24380"
                     /old_locus_tag="HV155_24385"
     CDS             191..1255
                     /locus_tag="HV155_RS24380"
                     /old_locus_tag="HV155_24385"
                     /EC_number="2.1.1.37"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001758058.1"
                     /GO_function="GO:0003886 - DNA
                     (cytosine-5-)-methyltransferase activity [Evidence IEA];
                     GO:0008168 - methyltransferase activity [Evidence IEA];
                     GO:1904047 - S-adenosyl-L-methionine binding [Evidence
                     IEA]"
                     /GO_process="GO:0006304 - DNA modification [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA cytosine methyltransferase"
                     /protein_id="WP_064174291.1"
                     /translation="MSLGLKQAGFDVRLAFDINENAVETYNKNIGNHCEKLDASIVSGK
                     FLLEKAGIKTRLDLFSGGPPCQGFSKQRRGAHLLDDDRNKLVLEYSRLVNELKPRAFLF
                     ENVEIFGQKRGKDLIDEIKSKLFDYNIYTYFICSSDFGVAQKRGRFLMIGIDKSEGKIV
                     PKLLKSDKTLTIRDVIGQLPPPPEDYKEHPDIPNHIKCKITKINEERFSHVPPGGGWKD
                     IPYDLRLKCHQKVDTASGGWPDVYGRLEWDKQCPTITAGFDSFTRGRYGHPSQNRAITL
                     REGAMLQGFPVNYRFYGNRDAIRLQIGNAVPPPVSYAAGTAIINCLDTKQDKNHFNFQN
                     PMELDKDGQFSLAI"
                     /name="DNA cytosine methyltransferase"
     gene            complement(1239..2144)
                     /locus_tag="HV155_RS24385"
                     /old_locus_tag="HV155_24390"
     CDS             complement(1239..2144)
                     /locus_tag="HV155_RS24385"
                     /old_locus_tag="HV155_24390"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001758059.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_032490083.1"
                     /translation="MDILKEKIDVASRLYNLNLDHIPATLQVIEHAMLLLKNNAGYGYF
                     GSFNGKNTQEYHSFTFNGEYSRPVRDDLFITDYDFFVSGFREFNESLRDIGSKWSSFDS
                     RRANKIIYTSVMSVACCFDLWKSGSRKTPGTFFEIFMAAVLKWMIPDEIFSKHIPLIDQ
                     LESDDESIDPSSVSTDIVIKSKYKNASVVIPLKITTRERIVQPFAQQRILDSYFGNGVY
                     FSFLACISETQQDKKKKKVNHICVPGTIRLYQKYLSSLSGMYYCDIPERYLERDLTDII
                     PVRTMGDFLFDIYSFFRSQG"
                     /name="hypothetical protein"
     gene            complement(2942..3364)
                     /locus_tag="HV155_RS24390"
                     /old_locus_tag="HV155_24395"
     CDS             complement(2942..3364)
                     /locus_tag="HV155_RS24390"
                     /old_locus_tag="HV155_24395"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005229777.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_004216558.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKGIKVID
                     TSELIRVFGSLDGVIDAVKYDVKSDAESTGINSVGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKHEPSSPPHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(3364..3555)
                     /locus_tag="HV155_RS24395"
                     /old_locus_tag="HV155_24400"
     CDS             complement(3364..3555)
                     /locus_tag="HV155_RS24395"
                     /old_locus_tag="HV155_24400"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166328.1"
                     /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="WP_000166328.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(4036..4185)
                     /locus_tag="HV155_RS24400"
                     /old_locus_tag="HV155_24405"
     CDS             complement(4036..4185)
                     /locus_tag="HV155_RS24400"
                     /old_locus_tag="HV155_24405"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_165689115.1"
                     /translation="MQSEHDELRDSTDTQLPGEYDLFDLMAQVTEENLHAPVDSGPPVG
                     REAL"
                     /name="hypothetical protein"
     gene            4742..4855
                     /locus_tag="HV155_RS24405"
                     /old_locus_tag="HV155_24410"
     CDS             4742..4855
                     /locus_tag="HV155_RS24405"
                     /old_locus_tag="HV155_24410"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_044108448.1"
                     /translation="MHEPPVQSDCCALSGNYHLESNPERHDKAPLAAAIGN"
                     /name="hypothetical protein"
     gene            complement(5030..5230)
                     /locus_tag="HV155_RS24375"
                     /old_locus_tag="HV155_24415"
     CDS             complement(5030..5230)
                     /locus_tag="HV155_RS24375"
                     /old_locus_tag="HV155_24415"
                     /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="WP_235606871.1"
                     /translation="MAGIATPTIADFERGARKPHGNNLRSIIIAFENKGLDFVEEGGEI
                     IGIFIRRKNVRAEESIDLSGH"
                     /name="hypothetical protein"
     Typing          complement(4179..4393)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="87.156"
                     /coverage="100.0"
                     /evalue="7.38e-63"
     Typing          4373..4855
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.033"
                     /coverage="93.0"
                     /evalue="0.0"
ORIGIN
        1 ctaaggccct agaggcctta caaatttcag gagtcatatt tttaatatga ttttgtatca
       61 aaacattgac ctctaggtat aattaacgct atcatacatg taaacggccc cttgtaagtg
      121 agacatcatg ccacatataa acacatctaa taaactaacg tgcatcgaag gtttttgtgg
      181 tgccgggggt atgtccctcg gtctgaaaca agcaggtttt gatgttaggt tggcatttga
      241 tattaatgaa aatgctgtag aaacctacaa caaaaacatt ggtaaccatt gcgaaaaatt
      301 agatgcttct attgttagcg ggaagtttct tttggaaaaa gcaggcataa aaacgagact
      361 agatcttttt agtggtgggc cgccttgtca ggggttttca aaacaaagaa gaggtgccca
      421 tcttcttgat gacgatagaa ataagttagt tcttgaatat tctaggttag ttaatgaatt
      481 aaaacctagg gcttttttat ttgaaaacgt ggaaatattt ggtcaaaaaa gaggcaaaga
      541 tcttattgat gaaattaaga gcaagctgtt tgattataac atatacacat atttcatctg
      601 ttcatctgat tttggagttg cgcaaaaaag aggccgtttc ctaatgattg gaatagacaa
      661 gtcagaaggt aaaatcgtcc ccaaactatt aaaatcagat aaaaccctta caataagaga
      721 tgtaattggt cagttacccc ctccaccaga ggattataaa gagcacccag acatacctaa
      781 tcatataaaa tgtaaaataa caaagattaa tgaggaaagg ttttcacacg tccctcctgg
      841 cggaggatgg aaagatatac catacgactt aaggttaaaa tgtcaccaaa aggttgatac
      901 ggcatcggga ggatggcctg acgtttatgg gagacttgaa tgggacaagc aatgtccaac
      961 cataacagca ggcttcgata gtttcactag aggcaggtat ggacacccct cacaaaatag
     1021 agcaataaca ttaagggagg gcgcaatgct acaaggattc cctgtaaact atagattcta
     1081 tggtaaccgt gatgctatta ggctacaaat tggaaatgct gtcccaccgc cagtgtccta
     1141 cgcagcagga acagcaataa ttaattgttt agatacgaag caagataaaa atcactttaa
     1201 cttccaaaat ccaatggagt tggataaaga cggacaattt agccttgcga tctaaagaaa
     1261 gagtaaatat caaataagaa atcacccata gttctgaccg gtattatatc ggtcagatct
     1321 ctttccaagt aacgctctgg aatatcgcag taatacatac cagagagact ggagagatat
     1381 ttttgatata atcttattgt ccctggaaca catatatgat taaccttttt cttcttctta
     1441 tcttgttgcg tctcgctaat acacgctaag aaagaaaaat aaacaccatt tccaaagtat
     1501 gagtccaata ttctctgctg ggcaaatggt tgaacgatcc tctctcttgt agttatcttt
     1561 aaaggtataa ctacactagc gtttttatat ttagacttta taacaatatc agtagacacg
     1621 cttgatggat cgattgactc atcatctgat tcaagttggt ctattagcgg tatgtgcttt
     1681 gagaaaatct catcaggaat catccatttc aacactgccg ccatgaaaat ttcaaaaaat
     1741 gttccaggag tctttctgct accacttttc caaagatcaa agcagcatgc aacagacatt
     1801 acagatgtat aaattatttt attagctctc ctagaatcaa aggatgacca tttactacca
     1861 atatccctca aactttcatt aaattctcta aaccctgaaa caaagaaatc atagtcagtg
     1921 ataaagagat catctcttac tggtcttgaa tattcgccat tgaacgtaaa tgaatgatat
     1981 tcttgtgtat tttttccatt aaatgaacca aagtaaccat atcctgcatt gttttttaat
     2041 aacaacattg catgttctat tacctgcagt gttgcaggaa tatgatccaa gtttaaatta
     2101 taaagccgtg aagcaacgtc aattttttct ttcaagatat ccatgttttt cccatgcctt
     2161 ttctgcgtta attttgttta ttagtgaatg tttttcatat aaatagagct actttcattt
     2221 accataacat ccgttatcag caccgcctga gaggctctca gggcgtttct gacgggaaac
     2281 cggcaaaaca ggcaacaaac cacccgaaaa cccgccagaa acgcgcaggc tctgttttta
     2341 cggcatgcat gagtatgcgc gcaagtgcat agcgcggaaa ttcacgccat tcagccgggg
     2401 taagtcctgt ttccggcgtt cttcccatcc gaaaacggtg aacggggacg caatttattg
     2461 cgtggccgtg aagcgttgcc ggcgcagccg gaaaaccggt tttcagcacg ttcaggaatc
     2521 gggttcgtcg acggccggca atcacgttat ggcaagtcgc cggacgactc accgacgatt
     2581 cgactcgtga cttgacccta gagtcaccgc ggtcaaaaaa acgccaaagc gacgattcga
     2641 ctctagagtc aagtcgtcat aagttactga tagtgtggag tgagtcgtcg atgactctat
     2701 gacgagtcgt cggcaagtcg tacacgaatc accgacgact tggattgacc ttacaaaagg
     2761 taatactgcg taatttaata aaacctaacc aactgataat aaggagttat ctgcaaaatt
     2821 ttaattttgc gtggtgtgtg ggtatttttc gtggtgagga gtgttcccgg atctggcgat
     2881 ttttgggaag gttcacgaac gccccggcat ggccggagag gaaaactcaa gcatggcggg
     2941 atcaggattt tttccagaat ttccaccacg gggaatgggg tggtgaagaa ggttcgtgct
     3001 tgtgctccag aagctgcata gcctgacgaa gggaatcaat atgctcatct cgagccttaa
     3061 cagccccttt aagaccatcg ttttcagctt caagtaaagc gattctatgt tgtaaatcat
     3121 gtaaaccaac gctgttaata cctgtagatt ctgcgtcact ttttacatca tattttacag
     3181 catcgatgac accatcaaga gaaccaaaca ctctaataag ctctgatgta tcaataactt
     3241 taataccctt cccgtgcttt acaacagagg tgtaacttaa cttaccactg ttaatcatct
     3301 tgtaaatagt agggcgacta accttaacaa gccgtgctgc ttcactaata gacactctgg
     3361 ccatcagtta ccatcctgta atgcatccag tctcgaggac agtgtacgga aaagatgctc
     3421 cgcatcatcg tggagtttct cacaaaggtc ggcctcagca tcgagatcaa gctcgttaag
     3481 cttctccagc aggagcagag actgattctg gatgaattta gccatgttca gcgcagtttt
     3541 ctgttgtttc gtcataaggg acctcagagc atcagtgctc agtgtaaaac cggtaagggg
     3601 gtcggatgta cgaatggttc agagaacgga tctgaggtaa tcctgtagtt attttgtagt
     3661 ttatctgtag tcatcgcact aaaaatcagg attaagtcat caacttttgt agtcttcctg
     3721 tagtttacct gtagtccgga aaaataatcc gttcatgctt gcatgaacga agcagttaaa
     3781 gacgcttttt cgtcgccgac gctccttaac ctgcgcagat cacgcggcca gaatgataat
     3841 tttttgcccc ttaaatggtc atacacctaa cgcagccgcg attttcatcg caactgcatg
     3901 aattaaaagg taaaaactga aatctccgtt tatttatgta atacgcaacg tattacaatc
     3961 acctgtaatc acatgaaaat aaagaaataa aatgtaatac cggcgtatta ccacgtacgc
     4021 gggcaagcga aaaagctata acgcttcccg gccgacaggc ggcccagaat ccacaggggc
     4081 atgcaggttc tcttcagtaa cctgcgccat taaatcaaaa aggtcatatt cgccgggaag
     4141 ctgcgtatca gtagaatccc gtagttcatc atgttcagat tgcatggggt gatatccagt
     4201 agctgagagg ttgttagcgg gtttcggggc gcagccctga accagtcacg cagcgctagc
     4261 ggagtgtata ctggcttact atgttaaatc gcggtggaaa ttcaggaaag tgcttcatgc
     4321 ggcaggggaa aatacggctg cggagcgtaa gtgcaaaatg cgggtaacag tgaaatgacg
     4381 cctcctcgct cactcggtcg ctgccgctcc tgccgttcgg ctgcggcggg cgttagctgc
     4441 acacggataa gagcaaaagc atgtggcatg acaaacaggg caggaaaagg acgaggcgct
     4501 gccgtttttc cataggctcc gcccccctga caagcatcac gaaatctgac gctcaaatca
     4561 gtggtggcga aacccgacag gactataaag atcccaggcg tttccccctg gtagctccct
     4621 cgtgcgctct cctgttcctg ccattcggtt gaccggtgtc attccgctgt tatggccgcg
     4681 gtttctcatt ccacgcctga cactcagttc cgggtaggca gttcgctcca agctggactg
     4741 tatgcacgaa ccccccgttc agtccgactg ctgcgcctta tccggtaact atcatcttga
     4801 gtccaacccg gaaagacacg acaaagcgcc actggcagca gccattggta actgatttag
     4861 aggagttggt cttgaagtta tgggccggtt aaggctaaac tgaaaggaca agttttggtg
     4921 actgtgctcc tccaagccag ttacctcggt tcaaagagtt gcttgctcag agaacctttg
     4981 aaaaaaccgc cttgcagggc ggttttttct ttccgataag atgatgccct caatgacctg
     5041 acagatcaat agattcctcg gctctgacat tctttcttct gataaagatc ccgattatct
     5101 caccaccctc ctcaacaaaa tccagcccct tgttttcaaa ggcaataatt atagatctca
     5161 agttattgcc atgaggtttt cttgcgccac gctcaaaatc agcaatggtt ggtgtcgcaa
     5221 ttccagccat aagagctagc tctttctgag tcaagttaa
//
