LOCUS       NZ_CP058200             4783 bp    DNA     circular CON 08-APR-2024
DEFINITION  Enterobacter roggenkampii strain RHBSTW-00002 plasmid
            pRHBSTW-00002_5, complete sequence.
ACCESSION   NZ_CP058200
VERSION     NZ_CP058200.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148444
            Assembly: GCF_013635755.1
KEYWORDS    RefSeq.
SOURCE      Enterobacter roggenkampii
  ORGANISM  Enterobacter roggenkampii
            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 T1-00002
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 95.537547253764x
            Sequencing Technology :: Hybrid: Illumina and PACBIO_SMRT
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_013635755.1-RS_2024_04_08
            Annotation Date                   :: 04/08/2024 10:12:35
            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)                     :: 4,771
            CDSs (total)                      :: 4,659
            Genes (coding)                    :: 4,452
            CDSs (with protein)               :: 4,452
            Genes (RNA)                       :: 112
            rRNAs                             :: 8, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 82
            ncRNAs                            :: 6
            Pseudo Genes (total)              :: 207
            CDSs (without protein)            :: 207
            Pseudo Genes (ambiguous residues) :: 0 of 207
            Pseudo Genes (frameshifted)       :: 63 of 207
            Pseudo Genes (incomplete)         :: 146 of 207
            Pseudo Genes (internal stop)      :: 28 of 207
            Pseudo Genes (multiple problems)  :: 26 of 207
            Pseudo Genes (short protein)      :: 1 of 207
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP058200.1.
            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 roggenkampii"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00002"
                     /isolation_source="Wastewater influent sample"
                     /db_xref="taxon:1812935"
                     /plasmid="pRHBSTW-00002_5"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(4694..4783,1..267)
                     /locus_tag="HV027_RS23445"
                     /old_locus_tag="HV027_23455"
     CDS             join(4694..4783,1..267)
                     /locus_tag="HV027_RS23445"
                     /old_locus_tag="HV027_23455"
                     /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(<587..709)
                     /locus_tag="HV027_RS24095"
                     /pseudo=""
     CDS             complement(<587..709)
                     /locus_tag="HV027_RS24095"
                     /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            1360..1683
                     /locus_tag="HV027_RS23450"
                     /old_locus_tag="HV027_23460"
     CDS             1360..1683
                     /locus_tag="HV027_RS23450"
                     /old_locus_tag="HV027_23460"
                     /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            1892..>2326
                     /locus_tag="HV027_RS23820"
                     /pseudo=""
     CDS             1892..>2326
                     /locus_tag="HV027_RS23820"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /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="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            2361..2852
                     /locus_tag="HV027_RS23460"
                     /old_locus_tag="HV027_23470"
     CDS             2361..2852
                     /locus_tag="HV027_RS23460"
                     /old_locus_tag="HV027_23470"
                     /inference="COORDINATES: protein motif:HMM:NF016710.4"
                     /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="WP_032629998.1"
                     /translation="MSSLLTLAKDLEQQSKAQQQSTGEMLKAAFSEHEQSVRAELSASA
                     RRISDAILAHEQSMSEAMEKNRRSVLRTAGRTWFTILMVSALLIGTSGSILWWQGQQIT
                     DNYTHLRQQEDTLAKMTARTWGVRYQESSDGRRFLILPPGMQTEAIPYDGTTWIRLKQE
                     "
                     /name="MbeB family mobilization protein"
     gene            2859..3074
                     /locus_tag="HV027_RS23465"
                     /old_locus_tag="HV027_23475"
     CDS             2859..3074
                     /locus_tag="HV027_RS23465"
                     /old_locus_tag="HV027_23475"
                     /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="WP_000137422.1"
                     /translation="MTELEKQLLSALEQLQQDYSQRLDEWESAFAEWRSMCGLMQRENA
                     VLNERVSDLSTQVLSLSEQLRRLSGN"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(3745..3987)
                     /locus_tag="HV027_RS23470"
                     /old_locus_tag="HV027_23480"
     CDS             complement(3745..3987)
                     /locus_tag="HV027_RS23470"
                     /old_locus_tag="HV027_23480"
                     /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"
     gene            4174..4491
                     /locus_tag="HV027_RS23475"
                     /old_locus_tag="HV027_23485"
     CDS             4174..4491
                     /locus_tag="HV027_RS23475"
                     /old_locus_tag="HV027_23485"
                     /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"
     Typing          1072..1245
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.0"
                     /coverage="100.0"
                     /evalue="1.21e-74"
     Typing          complement(597..1105)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.51"
                     /coverage="96.0"
                     /evalue="0.0"
     Typing          1361..1677
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.453"
                     /coverage="99.0"
                     /evalue="1.45e-59"
     Typing          1674..3166
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="94.2"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gctgaaatgt tgaatgtgca tagaaactct gccagtgctt tagttaacaa taatagaaag
       61 ctgtctaccg atatggcttt taggttggct aaagccttcg ataccactgc aaagttctgg
      121 ctaaatatac agcagtctgt tgatttatgg gaggttacta gtagccctcg attgcaagaa
      181 gaaatagaca gagtgattcc cgctcatgaa atcatagaaa ggaaacacat tgttgatagt
      241 tctgagaaga aacatgctat tgcatgattt tttttaaaaa aatataagtt atccctcaaa
      301 aagaaggctt ctataactag aagccttctt tttgagggat aaaaacgctc atgttaactt
      361 tcttcttacg atcttcttga gatccgtgct ctgtacgcgt aatctcttgc tctgtaaacg
      421 aaaaaaccgc ctggggaggc ggtttttcga aggttaagtc agttggggaa ctgcttaacc
      481 tggtaactgg cttcagcaga gcgcagatac caaatactgt ccttccagtg tagccgtagt
      541 taggccacca cttcaagaac tctgtagcac cgcctacata cctcgctctg ctaatcctgt
      601 taccagtggc tgctgccagt ggcgttttgt cgtgtctttc cgggttggac tcaagtcgat
      661 agttaccgga acaggcgcag cggtcggact gaacgggggg ttcgtgcata cagtccagct
      721 tggagcgaac tgcctacccg gaaccgagtg tcaggcgtgg aatgagacaa acgcggccat
      781 aacagcggaa tgacaccggt aaaccgaaag gcaggaacag gagagcgcac gagggagcca
      841 tcagggggaa acgcctggta tctttatagt cctgtcgggt ttcgccacca ctgatttgag
      901 cgtcagattc tgtgatgctc gtcagggggg cggagcctat ggaaaaccgg ctctgccgtg
      961 gccttatcgc ttccctgtta agtttcttcc tggcatcttc caggaaattt ccgccccgtt
     1021 cgtaagcccg caccgctcgc cgcagccgaa cgaccgagcg cagcgagtca gtgagcgagg
     1081 aagcggaata tatcctgtat cgcatattct gctgacgcgc cgttgccgcc ttttttctcc
     1141 tgccacatga agcacttcac tgatttccgt atccgtgcca acatattaag ccagtataca
     1201 ctccgctagc gctacgtgac tggttcaggg ctgcgccccg aaacccgcca aaagccactg
     1261 acgcgcctgc ggcttgtcca accccgcgcc gaccgggaaa ggctttcccg cccgtcccgg
     1321 cgttatcagg aggccggttt gtcagagaaa cggaacaaga tgctcaccat gtgggtgacg
     1381 gagggcgagc accggcggct gcttgagcgc tgcgacggca ggccgctggc ggcgtggatg
     1441 cggcagacct gcctggacga aaagcctgcg cgcaccggaa agctcccctc actctcgccg
     1501 gcgctgctgc gccagcttgc cggtatgggc aataacctga accagatagc ccgccgtgtt
     1561 aacgccggcg gcggcaccgg ccatgacagg gtacagattg tggcggcgct gatggccatc
     1621 gatgccgggc ttgagcggct gcggcacgcc gttcttgaga aaggaacgga cgatgatcgt
     1681 taaatttcat ccacgcggtc gcggcggtgg cgccgggccg gtggactatc tgctgggtaa
     1741 agaccggcag cgtgaaggcg ccagcgtcct gcaggggaag ccggaagaag tccgggagct
     1801 gattgacgcg tcgccttacg tgaagaaata cacctccggc gtactgtcgt ttgcggaggc
     1861 cgatctgcct cccggccagc gggaaaaact gatggccagc ttcgagcggg ttctgatgcc
     1921 cggactcgat aaagatcagt acagcattct gtgggtggag cacgcggaca aggggcgtct
     1981 ggagctgaac tttctgatcc ccaataccga actgctgacc ggcaggcggc tccagccgta
     2041 ctacgaccgc gccgaccggc cgcgcatcga tgcctggcag accatcgtga acggcagact
     2101 ggggctgcat gacccgaacg cgccggaaaa ccgccgggcg ctggtcacgc cgtccggact
     2161 gccgaaaacg aagcaggagg ccactgaagc catcacgcgc ggactgctga cccttgcttc
     2221 gtccggggag ctgaaaaacc gtcaggacgt cactgaggcg ctggaacggt caggttttga
     2281 ggtggtgcgc accacgaaaa gcagtatcag cattgccgac ccggacgggg ggcgaaacat
     2341 ccgactgaag ggagccatct atgagcagtc ttttaacgct ggcgaaggac ttagagcagc
     2401 aatcgaaagc gcagcagcag agtaccggcg agatgctgaa agccgcattc agcgagcacg
     2461 agcagtctgt cagagcggaa ctgagcgcaa gcgcgaggag aatcagcgac gccatcctcg
     2521 cacacgagca gagtatgagc gaggcgatgg agaaaaaccg gcggagcgta ctgcggactg
     2581 ccgggcggac atggttcacc atcctgatgg tgtcagcgct gctgatcggc acgagcggga
     2641 gcatactgtg gtggcagggg cagcagataa ccgacaatta cacgcatctt cgtcagcagg
     2701 aagataccct ggcgaaaatg actgcccgga cgtggggagt gcgctatcag gagagcagcg
     2761 acggccggag gtttcttatc ctgccgcccg ggatgcaaac cgaagccatc ccctacgacg
     2821 ggacgacatg gatccgcctg aaacaggagt agcggaaaat gacagagctg gaaaagcagt
     2881 tgctgagcgc attagagcag ctacagcagg actactcgca aaggctggac gaatgggaga
     2941 gcgccttcgc ggaatggcgg agcatgtgtg ggcttatgca acgggagaac gcggtgctga
     3001 acgagcgcgt gtcggacttg agcacgcagg tgctgagttt aagcgagcag ctgcgccgct
     3061 tgtccgggaa ctgaatgcca tcgagctccg gcagagggag aatgagtatc agaaaacact
     3121 ggagctggag cgccagccgc agaaaaccta ccgcgggccg acactttaaa ccatccaggc
     3181 agctgacaac ccgcacgaag aggggctctt atttctcccg ctaaataggt tcgtgatcaa
     3241 aaaggtcacg acttattcag gagcgggaaa tgaagctgtt aaatctcatt gaatcattgc
     3301 ttaactgcct gtatctggcg gcggagctgt gggactggct ggagaagcat ttgtcggttt
     3361 ttaaggcatt ggcgcggatt ttagtgtgac tttaacatcc atgcatctgg ctgcatgact
     3421 atgcaccagt gtaatattca gcggctgcgt ttctggtgtt ttttcgttat gtctgtcgcc
     3481 actttctcgc gtctggcacc ggaaacgcag ccaaccccgt ttcagcggtg cgcccaacgg
     3541 atgttatggt aaatcagtat cagctgcaga tataaaaaag ccgccaggct ggcggcttgc
     3601 tgttattttc gtggctttcc tgcatctgag cgttttcctc tgacccttcc gtcattgtta
     3661 cggtcacgag gttgagttcc gccgcctggt ttaggaacga caacgtgtgg gttgagtggt
     3721 cgacgatctg ccattttcta tacctcactg agcataaaca aacaattgcc aacgaatgtt
     3781 cccttgcgcg ggggtatgtt ggtggtggtt ttgtggtggg attgttttcc cgcctgcgat
     3841 agttacttct ttaccgcaac cggtacattt ataaatccct tcatattcac atgtttctcc
     3901 cggcttatat tcagtgtcaa aaaccgagtt aaacttcgta tctgcttcaa aaatcttgct
     3961 tttgtttcct gagcgaacaa gagccatgca acctccaaat tatcatttat tttgcacacc
     4021 tgcactgtgc atgagtgcat tctacagcat agccattgat tgcacaagtg cactgtgctg
     4081 ttgtgcattt gatatgtttg ctgtactata tcggaggtaa gaaggtgatc gaaaaaattg
     4141 ccaagttgcg gcaaaaattg aggtaaaaga aaaatgcagc aagatcatga acatgatgat
     4201 tgccgcattc agtttcgaga cgattggcta taccagtttt acaaatatgg taaagccaat
     4261 cgaaagattc caactgcgat tagtgcttca ttaggtcgca agctggatat gctgaatgct
     4321 gctgataaag ttggagattt gcggtctccc ccgggaaacc gatttgagaa tctcaaccct
     4381 ccattgacag ggtattcatc catacgggtg aatgagaagt accgcttgat atttaagtgg
     4441 ggtgaaaacg gagtcgagga tttgtatctc gatccacatg attaccgata gataacaggt
     4501 cgtggctgtt atcttataaa acaagtaggt gaggcgttcc ctcacctaca ttaaaatgtc
     4561 attacaaata atgattaata aaaaaaatga cgtgactata tttaagataa ttactcatcg
     4621 ctacagctgg taatagacga aatacttatc ttcctcatct aacagagaga agtaaaaaat
     4681 ttaggagtaa agcatgtccc aagcaactag aaaaccatca actgtagggg atattattct
     4741 ttatgaatat ctcgaaccaa gtggtttaaa aatcaatgac ttg
//
