LOCUS       NZ_CP056749             4783 bp    DNA     circular CON 04-APR-2024
DEFINITION  Enterobacter hormaechei strain RHBSTW-00217 plasmid pRHBSTW-00217_3,
            complete sequence.
ACCESSION   NZ_CP056749
VERSION     NZ_CP056749.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148546
            Assembly: GCF_013743755.1
KEYWORDS    RefSeq.
SOURCE      Enterobacter hormaechei
  ORGANISM  Enterobacter hormaechei
            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                     :: WTP3 T1-00217
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 103.499277906647x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_013743755.1-RS_2024_04_04
            Annotation Date                   :: 04/04/2024 05:08:04
            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)                     :: 4,586
            CDSs (total)                      :: 4,472
            Genes (coding)                    :: 4,389
            CDSs (with protein)               :: 4,389
            Genes (RNA)                       :: 114
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 83
            CDSs (without protein)            :: 83
            Pseudo Genes (ambiguous residues) :: 0 of 83
            Pseudo Genes (frameshifted)       :: 30 of 83
            Pseudo Genes (incomplete)         :: 45 of 83
            Pseudo Genes (internal stop)      :: 23 of 83
            Pseudo Genes (multiple problems)  :: 13 of 83
            Pseudo Genes (short protein)      :: 1 of 83
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP056749.1.
            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..4783
                     /organism="Enterobacter hormaechei"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00217"
                     /isolation_source="Wastewater influent sample"
                     /db_xref="taxon:158836"
                     /plasmid="pRHBSTW-00217_3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(3710..4783,1..423))
                     /locus_tag="HV129_RS23025"
     CDS             complement(join(3710..4783,1..423))
                     /locus_tag="HV129_RS23025"
                     /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="relaxase/mobilization nuclease domain-containing
                     protein"
                     /protein_id="WP_058685396.1"
                     /translation="MIVKFHPRGRGGGAGPVDYLLGKDRQREGASVLQGKPEEVRELID
                     ASPYVKKYTSGVLSFAEADLPPGQREKLMASFERILMPGLDKDQYSILWVEHADKGRLE
                     LNFLIPNTELLTGRRLQPYYDRADRPRIDAWQTIVNGRLGLHDPNAPENRRALVTPSGL
                     PKTKQEATEAITRGLLTLASSGELKNRQDVTEALERSGFEVVRTTKSSISIADPDGGRN
                     IRLKGAIYEQSFNAGEGLRAAIESAAAEYRRDAESRIQRARAVCQSGTERKREENQRRH
                     PRTRAEYERGDGEKPAERTADCRADMVHHPDGVSAADRHEREHTVVAGAADNRQLHASS
                     SAGRYPGENDCPDVGSALSGEQRRPEVSYPAARDANRSHPLRRDDMDPPETGVAENDRA
                     GKAVAERIRAATAGLLAKAGRMGERLRGMAEHVWAYATGERGAERARVGLEHAGAEFKR
                     AAAPLVRELNAIELRQRENEYQKTLELERQPQKTYRGPTL"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(413..736)
                     /locus_tag="HV129_RS22815"
                     /old_locus_tag="HV129_22835"
     CDS             complement(413..736)
                     /locus_tag="HV129_RS22815"
                     /old_locus_tag="HV129_22835"
                     /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="WP_163063187.1"
                     /translation="MLTMWVTEGEHRRLLERCDGRPLAAWMRQTCLDEKPARTGKLPSL
                     SPALLRQLAGMGNNLNQIARRVNAGGGTGHDRVQIVAALMAIDAGLERLRHAVLEKGTD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1387..>1509
                     /locus_tag="HV129_RS23050"
                     /pseudo=""
     CDS             1387..>1509
                     /locus_tag="HV129_RS23050"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001487656.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /name="replication initiation protein"
     gene            complement(1829..2185)
                     /locus_tag="HV129_RS22820"
                     /old_locus_tag="HV129_22840"
     CDS             complement(1829..2185)
                     /locus_tag="HV129_RS22820"
                     /old_locus_tag="HV129_22840"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000075993.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="HigA family addiction module antitoxin"
                     /protein_id="WP_023316024.1"
                     /translation="MSQATRKPSTVGDIILYEYLEPSGLKINDLAEMLNVHRNSASALV
                     NNNRKLSTDMAFRLAKAFDTTAKFWLNIQQSVDLWEVTSSPRLQEEIDRVIPAHEIIER
                     KHIVDSSEKKHAIA"
                     /name="HigA family addiction module antitoxin"
     gene            complement(2388..2705)
                     /locus_tag="HV129_RS22825"
                     /old_locus_tag="HV129_22845"
     CDS             complement(2388..2705)
                     /locus_tag="HV129_RS22825"
                     /old_locus_tag="HV129_22845"
                     /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="WP_023316025.1"
                     /translation="MQQDHEHDDCRIQFRDDWLYQFYKYGKANRKIPTAISASLGRKLD
                     MLNAADKVGDLRSPPGNRFENLNPPLTGYSSIRVNEKYRLIFKWGENGVEDLYLDPHDY
                     R"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            2892..3134
                     /locus_tag="HV129_RS22830"
                     /old_locus_tag="HV129_22850"
     CDS             2892..3134
                     /locus_tag="HV129_RS22830"
                     /old_locus_tag="HV129_22850"
                     /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="hypothetical protein"
                     /protein_id="WP_023316026.1"
                     /translation="MALVRSGNKSKIFEADTKFNSVFDTEYKPGETCEYEGIYKCTGCG
                     KEVTIAGGKTIPPQNHHQHTPAQGNIRWQLFVYAQ"
                     /name="hypothetical protein"
     Typing          complement(852..1025)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.0"
                     /coverage="100.0"
                     /evalue="1.21e-74"
     Typing          949..1496
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.559"
                     /coverage="90.0"
                     /evalue="0.0"
     Typing          complement(2..423)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.582"
                     /coverage="100.0"
                     /evalue="3.88e-85"
     Typing          complement(420..736)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.453"
                     /coverage="99.0"
                     /evalue="1.45e-59"
     Typing          complement(4440..4783)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="89.565"
                     /coverage="92.0"
                     /evalue="2.830000000000001e-58"
ORIGIN
        1 gccgttcacg atggtctgcc aggcatcgat gcgcggccgg tcggcgcggt cgtagtacgg
       61 ctggagccgc ctgccggtca gcagttcggt attggggatc agaaagttca gctccagacg
      121 ccccttgtcc gcgtgctcca cccacagaat gctgtactga tctttatcga gtccgggcat
      181 cagaatccgc tcgaagctgg ccatcagttt ttcccgctgg ccgggaggca gatcggcctc
      241 cgcaaacgac agtacgccgg aggtgtattt cttcacgtaa ggcgacgcgt caatcagctc
      301 ccggacttct tccggcttcc cctgcaggac gctggcgcct tcacgctgcc ggtctttacc
      361 cagcagatag tccaccggcc cggcgccacc gccgcgaccg cgtggatgaa atttaacgat
      421 catcgtccgt tcctttctca agaacggcgt gccgcagccg ctcaagcccg gcatcgatgg
      481 ccatcagcgc cgccacaatc tgtaccctgt catggccggt gccgccgccg gcgttaacac
      541 ggcgggctat ctggttcagg ttattgccca taccggcaag ctggcgcagc agcgccggcg
      601 agagtgaggg gagctttccg gtgcgcgcag gcttttcgtc caggcaggtc tgccgcatcc
      661 acgccgccag cggcctgccg tcgcagcgct caagcagccg ccggtgctcg ccctccgtca
      721 cccacatggt gagcatcttg ttccgtttct ctgacaaacc ggcctcctga taacgccggg
      781 acgggcggga aagcctttcc cggtcggcgc ggggttggac aagccgcagg cgcgtcagtg
      841 gcttttggcg ggtttcgggg cgcagccctg aaccagtcac gtagcgctag cggagtgtat
      901 actggcttaa tatgttggca cggatacgga aatcagtgaa gtgcttcatg tggcaggaga
      961 aaaaaggcgg caacggcgcg tcagcagaat atgcgataca ggatatattc cgcttcctcg
     1021 ctcactgact cgctgcgctc ggtcgttcgg ctgcggcgag cggtgcgggc ttacgaacgg
     1081 ggcggaaatt tcctggaaga tgccaggaag aaacttaaca gggaagcgat aaggccacgg
     1141 cagagccggt tttccatagg ctccgccccc ctgacgagca tcacagaatc tgacgctcaa
     1201 atcagtggtg gcgaaacccg acaggactat aaagatacca ggcgtttccc cctgatggct
     1261 ccctcgtgcg ctctcctgtt cctgcctttc ggtttaccgg tgtcattccg ctgttatggc
     1321 cgcgtttgtc tcattccacg cctgacactc ggttccgggt aggcagttcg ctccaagctg
     1381 gactgtatgc acgaaccccc cgttcagtcc gaccgctgcg cctgttccgg taactatcga
     1441 cttgagtcca acccggaaag acacgacaaa acgccactgg cagcagccac tggtaacagg
     1501 attagcagag cgaggtatgt aggcggtgct acagagttct tgaagtggtg gcctaactac
     1561 ggctacactg gaaggacagt atttggtatc tgcgctctgc tgaagccagt taccaggtta
     1621 agcagttccc caactgactt aaccttcgaa aaaccgcctc cccaggcggt tttttcgttt
     1681 acagagcaag agattacgcg tacagagcac ggatctcaag aagatcgtaa gaagaaagtt
     1741 aacatgagcg tttttatccc tcaaaaagaa ggcttctagt tatagaagcc ttctttttga
     1801 gggataactt atattttttt aaaaaaaatc atgcaatagc atgtttcttc tcagaactat
     1861 caacaatgtg tttcctttct atgatttcat gagcgggaat cactctgtct atttcttctt
     1921 gcaatcgagg gctactagta acctcccata aatcaacaga ctgctgtata tttagccaga
     1981 actttgcagt ggtatcgaag gctttagcca acctaaaagc catatcggta gacagctttc
     2041 tattattgtt aactaaagca ctggcagagt ttctatgcac attcaacatt tcagccaagt
     2101 cattgatttt taaaccactt ggttcgagat attcataaag aataatatcc cctacagttg
     2161 atggttttct agttgcttgg gacatgcttt actcctaaat tttttacttc tctctgttag
     2221 atgaggaaga taagtatttc gtctattacc agctgtagcg atgagtaatt atcttaaata
     2281 tagtcacgtc atttttttta ttaatcatta tttgtaatga cattttaatg taggtgaggg
     2341 aacgcctcac ctacttgttt tataagataa cagccacgac ctgttatcta tcggtaatca
     2401 tgtggatcga gatacaaatc ctcgactccg ttttcacccc acttaaatat caagcggtac
     2461 ttctcattca cccgtatgga tgaataccct gtcaatggag ggttgagatt ctcaaatcgg
     2521 tttcccgggg gagaccgcaa atctccaact ttatcagcag cattcagcat atccagcttg
     2581 cgacctaatg aagcactaat cgcagttgga atctttcgat tggctttacc atatttgtaa
     2641 aactggtata gccaatcgtc tcgaaactga atgcggcaat catcatgttc atgatcttgc
     2701 tgcatttttc ttttacctca atttttgccg caacttggca attttttcga tcaccttctt
     2761 acctccgata tagtacagca aacatatcaa atgcacaaca gcacagtgca cttgtgcaat
     2821 caatggctat gctgtagaat gcactcatgc acagtgcggg tgtgcaaaat aaatgataat
     2881 ttggaggttg catggctctt gttcgctcag gaaacaaaag caagattttt gaagcagata
     2941 cgaagtttaa ctcggttttt gacactgaat ataagccggg agaaacatgt gaatatgaag
     3001 ggatttataa atgtaccggt tgcggtaaag aagtaactat cgcaggcggg aaaacaatcc
     3061 caccacaaaa ccaccaccaa catacccccg cgcaagggaa cattcgttgg caattgtttg
     3121 tttatgctca gtgaggtata gaaaatggca gatcgtcgac cactcaaccc acacgttgtc
     3181 gttcctaaac caggcggcgg aactcaacct cgtgaccgta acaatgacgg aagggtcaga
     3241 ggaaaacgct cagatgcagg aaagccacga aaataacagc aagccgccag cctggcggct
     3301 tttttatatc tgcagctgat actgatttac cataacatcc gttgggcgca ccgctgaaac
     3361 ggggttggct gcgtttccgg tgccagacgc gagaaagtgg cgacagacat aacgaaaaaa
     3421 caccagaaac gcagccgctg aatattacac tggtgcatag tcatgcagcc agatgcatgg
     3481 atgttaaagt cacactaaaa tccgcgccaa tgccttaaaa accgacaaat gcttctccag
     3541 ccagtcccac agctccgccg ccagatacag gcagttaagc aatgattcaa tgagatttaa
     3601 cagcttcatt tcccgctcct gaataagtcg tgaccttttt gatcacgaac ctatttagcg
     3661 ggagaaataa gagcccctct tcgtgcgggt tgtcagctgc ctggatggtt taaagtgtcg
     3721 gcccgcggta ggttttctgc ggctggcgct ccagctccag tgttttctga tactcattct
     3781 ccctctgccg gagctcgatg gcattcagtt cccggacaag cggcgcagct gctcgcttaa
     3841 actcagcacc tgcgtgctca agtccgacac gcgctcgttc agcaccgcgt tctcccgttg
     3901 cataagccca cacatgctcc gccattccgc gaaggcgctc tcccattcgt ccagcctttg
     3961 cgagtagtcc tgctgtagct gctctaatgc gctcagcaac tgcttttcca gctctgtcat
     4021 tttccgctac tcctgtttca ggcggatcca tgtcgtcccg tcgtagggga tggcttcggt
     4081 ttgcatcccg ggcggcagga taagaaacct ccggccgtcg ctgctctcct gatagcgcac
     4141 tccccacgtc cgggcagtca ttttcgccag ggtatcttcc tgctgacgaa gatgcgtgta
     4201 attgtcggtt atctgctgcc cctgccacca cagtatgctc ccgctcgtgc cgatcagcag
     4261 cgctgacacc atcaggatgg tgaaccatgt ccgcccggca gtccgcagta cgctccgccg
     4321 gtttttctcc atcgcctcgc tcatactctg ctcgtgtgcg aggatggcgt cgctgattct
     4381 cctcgcgctt gcgctcagtt ccgctctgac agactgctcg tgctcgctga atgcggcttt
     4441 cagcatctcg ccggtactct gctgctgcgc tttcgattgc tgctctaagt ccttcgccag
     4501 cgttaaaaga ctgctcatag atggctccct tcagtcggat gtttcgcccc ccgtccgggt
     4561 cggcaatgct gatactgctt ttcgtggtgc gcaccacctc aaaacctgac cgttccagcg
     4621 cctcagtgac gtcctgacgg tttttcagct ccccggacga agcaagggtc agcagtccgc
     4681 gcgtgatggc ttcagtggcc tcctgcttcg ttttcggcag tccggacggc gtgaccagcg
     4741 cccggcggtt ttccggcgcg ttcgggtcat gcagccccag tct
//
