LOCUS       NZ_CP056744             5321 bp    DNA     circular CON 04-APR-2024
DEFINITION  Enterobacter hormaechei strain RHBSTW-00220 plasmid pRHBSTW-00220_3,
            complete sequence.
ACCESSION   NZ_CP056744
VERSION     NZ_CP056744.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148549
            Assembly: GCF_013743295.1
KEYWORDS    RefSeq.
SOURCE      Enterobacter hormaechei
  ORGANISM  Enterobacter hormaechei
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Enterobacter; Enterobacter cloacae complex.
REFERENCE   1  (bases 1 to 5321)
  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 5321)
  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 T1-00220
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 109.836668560382x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_013743295.1-RS_2024_04_04
            Annotation Date                   :: 04/04/2024 05:17:40
            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)                     :: 4,715
            CDSs (total)                      :: 4,601
            Genes (coding)                    :: 4,510
            CDSs (with protein)               :: 4,510
            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)              :: 91
            CDSs (without protein)            :: 91
            Pseudo Genes (ambiguous residues) :: 0 of 91
            Pseudo Genes (frameshifted)       :: 27 of 91
            Pseudo Genes (incomplete)         :: 60 of 91
            Pseudo Genes (internal stop)      :: 23 of 91
            Pseudo Genes (multiple problems)  :: 16 of 91
            Pseudo Genes (short protein)      :: 1 of 91
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP056744.1.
            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..5321
                     /organism="Enterobacter hormaechei"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00220"
                     /isolation_source="Wastewater influent sample"
                     /db_xref="taxon:158836"
                     /plasmid="pRHBSTW-00220_3"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(5045..5321,1..844))
                     /locus_tag="HV132_RS23350"
                     /old_locus_tag="HV132_23365"
     CDS             complement(join(5045..5321,1..586,586..844))
                     /locus_tag="HV132_RS23350"
                     /old_locus_tag="HV132_23365"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_076611474.1"
                     /ribosomal_slippage=""
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /GO_process="GO:0006313 - DNA transposition [Evidence IEA]"
                     /note="programmed frameshift; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="IS3-like element ISSen4 family transposase"
                     /protein_id="WP_085950818.1"
                     /translation="MKKRFSDEQIISILREAEAGVPARELCRKHAISDATFYTWRKKYG
                     GMEVPEVKRLKSLEEENTRLKKLLAEAMLDKEALQVALGRKLLTTDQKREAVMLMCDAT
                     GLSQRRACRLTGLSLSTCRYEAHRPAADAHLSGRITELALERRRFGYRRIWQLLRREGL
                     HVNHKRVYRLYHLSGLGVKRRRRRKGLATERLPLLRPAAPNLTWSMDFVMDALSTGRRI
                     KCLTCVDDFTKECLTVTVAFGISGVQVTRILDSIALFRGYPATIRTDQGPEFTCRALDQ
                     WAFEHGVELRLIQPGKPTQNGFIESFNGRFRDECLNEHWFSDIVHARKIINDWRQDYNE
                     CRPHSTLNYQTPSEFAAGWRKGHSENEDSDVTN"
                     /name="IS3-like element ISSen4 family transposase"
     gene            complement(1231..1389)
                     /locus_tag="HV132_RS23770"
     CDS             complement(1231..1389)
                     /locus_tag="HV132_RS23770"
                     /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_032670878.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPERHEKSLLAAAISNWRYTRDKL
                     RGLEVWA"
                     /name="hypothetical protein"
     gene            2028..2351
                     /locus_tag="HV132_RS23355"
                     /old_locus_tag="HV132_23370"
     CDS             2028..2351
                     /locus_tag="HV132_RS23355"
                     /old_locus_tag="HV132_23370"
                     /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_001555769.1"
                     /translation="MLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPARAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGSSGLDRVQVVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2560..>2994
                     /locus_tag="HV132_RS23730"
                     /pseudo=""
     CDS             2560..>2994
                     /locus_tag="HV132_RS23730"
                     /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            3029..3514
                     /locus_tag="HV132_RS23365"
                     /old_locus_tag="HV132_23380"
     CDS             3029..3514
                     /locus_tag="HV132_RS23365"
                     /old_locus_tag="HV132_23380"
                     /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_012782630.1"
                     /translation="MNSLLTLAKDLEQKSKVQQQTTGEMLKAAFSEHEKSVRAELNESE
                     KRISAAIHDHDRMLSSAMSQRTKGMLRMVSQTWLTIVLVSVLLIASSAGILWWQGQQIL
                     DNYTTIREQKSTQAMLSERNSGVQLTTCGEERRRCVRVNPDAGRFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            3518..3727
                     /locus_tag="HV132_RS23370"
                     /old_locus_tag="HV132_23385"
     CDS             3518..3727
                     /locus_tag="HV132_RS23370"
                     /old_locus_tag="HV132_23385"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_014538403.1"
                     /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_001632067.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWESAFAEWRTMCGLMQRENA
                     ALSERVTDLSTQVLSLSEQLRRLS"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(4257..4484)
                     /locus_tag="HV132_RS23375"
                     /old_locus_tag="HV132_23390"
     CDS             complement(4257..4484)
                     /locus_tag="HV132_RS23375"
                     /old_locus_tag="HV132_23390"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010615788.1"
                     /GO_component="GO:0005886 - plasma membrane [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="YgdI/YgdR family lipoprotein"
                     /protein_id="WP_000719360.1"
                     /translation="MKKIFVSVFAAAVALSALTGCTRTSYAIHTNDGRTIVSDGKPTES
                     DSGLLGYKDANGVKQQINKADVKEVSEIPH"
                     /name="YgdI/YgdR family lipoprotein"
     gene            complement(4506..4739)
                     /locus_tag="HV132_RS23380"
                     /old_locus_tag="HV132_23395"
     CDS             complement(4506..4739)
                     /locus_tag="HV132_RS23380"
                     /old_locus_tag="HV132_23395"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008461706.1"
                     /GO_component="GO:0005886 - plasma membrane [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="YgdI/YgdR family lipoprotein"
                     /protein_id="WP_001036746.1"
                     /translation="MNKKTLLAAMMVALVTFAAAGCSSNQEIKTTDDRTIVTDGKPKVD
                     SDTGLVSYKDAHTGRTEQINRDKITNMSELDN"
                     /name="YgdI/YgdR family lipoprotein"
     Typing          1842..1920
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="5.8899999999999995e-34"
     Typing          complement(1278..1766)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="86.747"
                     /coverage="94.0"
                     /evalue="7.82e-151"
     Typing          2342..3837
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.998"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cattgatcca gtgcacggca agtgaactcc ggcccctggt cagttcttat cgtcgccgga
       61 tagcctcgaa acagtgcaat gctgtccaga atacgcgtga cctgaacgcc tgaaatccca
      121 aaggcaacag tgaccgtcag gcattccttt gtgaaatcat cgacgcaggt aagacacttg
      181 atcctgcgac cggtggaaag tgcgtccatg acgaaatcca tcgaccaggt cagattgggc
      241 gccgccggac ggagcagcgg cagacgttct gttgccagcc ctttacgacg tcttctgcgt
      301 tttacgccca ggccactgag gtgataaagc cggtacacgc gcttatgatt aacatgaagc
      361 ccttcacggc gcagcaactg ccaaatacga cggtagccaa aacgcctgcg ctccagtgcc
      421 agctcagtga tgcgccctga taaatgcgca tcagcagccg gacggtgagc ctcatagcgg
      481 caggtcgaca gggataaacc tgtaagcctg caggcacgac gttgcgacag accggtcgca
      541 tcacacatca acatcacggc ttcccgcttc tggtctgtcg tcagtacttt cgcccaagag
      601 ccacctgaag cgcctcttta tccagcatgg cttcggcaag cagcttcttg agtctggtgt
      661 tctcttcctc aagcgacttc aggcgcttaa cttcaggcac ctccataccg ccatacttct
      721 tacgccaggt gtaaaacgtg gcatcggaaa tggcatgctt gcggcagagt tcacgggcgg
      781 gtaccccagc ttcggcttcg cggagaatac tgatgatctg ttcgtcggaa aaacgcttct
      841 tcatggggat gtcctcatgt ggcttatgaa gacattacta acatcggggt gtactaatca
      901 acggggagca ggtcacggtg gcgcaataga acttcaacac aacggcggtc ggaagattca
      961 ttgcgagata ctaaaagtaa ggtggagtcg ttaactcaag taatgtttcc taagtatgtt
     1021 gataggcaaa catagtggta gttagtctct ctgagtaaat gatcttcttg tgatcctgtc
     1081 gttacagtcg taatctcttg ctctgaaaac gaaaaaacca cctggggagg tggtttgatc
     1141 gaaggttaag tcagttgggg aactgcttaa ccaggtaact gggtatacga gaccgcagaa
     1201 accaaaactg ttctttcagt gtagcctctc tcaggcccat acttcaagac ctcttaattt
     1261 gtctctcgta tacctccagt tactaatggc tgctgccagt agcgattttt cgtgtctttc
     1321 cgggttggac tcaagacgat agttaccgga taaggcgcag cagtcggact gaacgggggg
     1381 ttcgtgcata cagtcaatcc tggagcgaac tgccttcgcg gaactgagtg tcaggcgtgg
     1441 aatgagaaac cgcggccata acagcggaat gacaccggta aaccgaaagg caggaatgcg
     1501 ggggagcacg agggagccat cagggggaaa cgcctggtat ctttaagccg catcgggttt
     1561 cgccaccact gatttgagcg tcagattctg tgatgcttgt caggggggcg gagcctatgg
     1621 aaaaccggca gcggcgcatc ctttcttccc ctcctgcatt cacgtatttc cccgccacgt
     1681 ctttatccgt gagtccgtac cgctcgccgc agccgaacga ccgagcgtag cgagtcagtg
     1741 agcgaggaag cggaatatcc accgggacag gcatcagcct cttacgcacc tgagcctcat
     1801 ctcacagttt tcatgactga ctatttcatc ccgattcccg tcgtgccacc atagtaagcc
     1861 agtatacact ccgctagcgc tacgtgactg gttcagggct gcgccccgaa acccgctaaa
     1921 tgccactgac gcgcctgcgg cttgcccaac accgcgccga ccgggaaaag atttcccgcc
     1981 cgtcccggcg ttatcaggag gccggattgg cagacaaacg cagcaaaatg ctcacgatgt
     2041 gggtaacaga agatgagcac cgccgtctgc tggaacgctg cgacggtaaa cagctcgcgg
     2101 cctggatgcg gcagacgtgc ctggacgaga agcccgcccg ggccggcaaa cttccctcga
     2161 tctcgccggc gctgcttcgt cagcttgccg gcatggggaa caacctcaac cagattgccc
     2221 gccaggttaa cgccggtggc agtagcggtc tcgaccgcgt gcaggtcgtc gccgcgctga
     2281 tggccatcga tgccggactc gagcggctgc ggcatgccgt actggaaaag ggggctgacg
     2341 atgatcgtta agtttcatcc ccggggacgc ggaggcggtg ccggcccggt tgattatctg
     2401 ctggggaaag accgccagcg cgacggtgcc agcgttcttc aggggaagcc ggaggaagtc
     2461 cgggagctta tcgacgcctc gccctacgcc aaaaagtaca cctccggggt gctgtccttt
     2521 gccgaacagg acttaccgcc cgggcagcgt gaaacgctga tggcgagctt cgagcgggtt
     2581 ctgatgcccg gactcgataa agaccagtac agcgtgctgt gggttgagca ccgggacaag
     2641 gggcggctgg agctgaactt cctgatcccg aacacggagc tgctgaccgg caaacggctc
     2701 cagccatact atgaccgcgc cgaccgtcct cgcattgatg cctggcagac catcgtgaac
     2761 ggcagtctgg ggctgcacga cccgaacgcg ccggaaaacc ggcgggcact ggtcacgccg
     2821 tccgcgctgc cggaaacgaa gcaggaagcc gctcaggcga ttacgcgggg tttactggcc
     2881 ttagcctcgt ccggggagct gaaaacgcgt caggacgtca ctgaggcgct ggaaagcgca
     2941 ggttttgagg tggttcgcac cacaaaaagc agcatcagca ttgccgaccc ggacgggggg
     3001 cgaaacatcc gactgaaggg agccatctat gaacagtctt ttaacgctgg cgaaggactt
     3061 agagcagaaa tcgaaagtgc agcagcagac taccggcgag atgctgaaag ccgcattcag
     3121 cgagcacgag aagtctgtca gagcggaact gaacgaaagc gagaagagaa tcagcgccgc
     3181 catccacgac cacgaccgga tgctgtcctc agccatgagc cagcgtacga aagggatgct
     3241 gcgcatggtc agccagacgt ggctgaccat cgtcctggtc tccgtgctgc tgatagcctc
     3301 aagtgcgggc attctatggt ggcaggggca gcagatactc gacaattaca cgaccatccg
     3361 ggagcagaag agcacgcagg ccatgctgtc cgagaggaac agcggcgtgc agctcacgac
     3421 ctgcggagag gaacgacgcc gctgcgtgag ggtgaacccg gacgcgggac ggttcggaga
     3481 ggattcgagc tggatgatac tggcggggaa atagcacatg acggaactgg aaaaacagtt
     3541 gctgagcgca ttagagcagc tacagcagga ctactcgaaa aggctggacg agtgggagag
     3601 cgccttcgcg gaatggcgga cgatgtgtgg tcttatgcaa cgggagaacg cagcgctgag
     3661 cgagcgcgtc acggacttga gcacgcaggt gctgagttta agcgagcagc tgcgccggtt
     3721 gtcgtaaggc tgaacgacat cgaggcacac cgggagcagg agcgcgcagc gcagcaccag
     3781 aaagcgctgg agctggaacg atcgcagcgt cagcaggagt atgacggtcc gtcgctgtga
     3841 taaccggata aaacggggct ttcattgagg atctgcgccg aaacccggtg ccattcaccc
     3901 ggctgcatgg ctatgcagtc gggtgagatt tatcaggcgc agaatgcacg gtttgcgggg
     3961 tggtttactg tcggttttgc aggactgacg ccgcattcgc gctgaacccg tccggagagg
     4021 tgcgggcaag ggatgttatg gtaaaagcat gatgcctggc gggtacggaa aaattgtggc
     4081 gaccgagcct gcagacgcaa aaatccggcc catacttatt cgtctccttc atcaggaatg
     4141 cagtactatc cagccactgc aggtatttgg cccccagcgg gggctttttt tgcctgttgt
     4201 tggggcagat aaagaaaagg gccgcattag cggccctttt cggagagagc gatgcctcaa
     4261 tgcggaattt cagagacttc tttaacgtcg gctttattga tctgctgttt gacaccattt
     4321 gcgtctttat agcccagcag gcctgagtct gattctgtag gcttgccgtc gctgacaatt
     4381 gtacgcccgt cgttggtgtg gatggcatag cttgtgcgcg tgcagccggt tagggctgaa
     4441 agcgcaactg ccgctgcgaa cactgaaaca aaaatctttt tcaaagccag ctccttttat
     4501 ccgtatcagt tgtctagttc actcatgttg gtaattttgt cacggttgat ctgttcggtt
     4561 cggcctgtat gggcatcttt gtaggatact aatcccgtat cactgtcaac tttgggtttg
     4621 ccgtctgtaa cgatagtgcg atcatctgtg gtttttattt cttggtttga agaacatcca
     4681 gcagcggcaa aggtcaccaa cgcgaccatc atggccgcca acagcgtttt tttattcata
     4741 ataggttccc tgcttaaagg taaagtggat atggtcacta accatctaag tataggtcgt
     4801 tttttcatgc gaaaagagga ttgaatggac aagaatttcg attattgctg acagagcatg
     4861 gagaaaaaga ggctgtttta ctgttcggaa agaaatcttt tgttgccgtg ccagatacgc
     4921 agaaccttta tggtgggtgt tattaccttt atttagagga tgctcacaag aacgagcttt
     4981 taattgagtt aaacgaaagt gatttatacc ccggttgacc tgcccccacg attagataca
     5041 acactcagtt agtaacgtcg gaatcttcat tctcagaatg accctttctc cagcccgctg
     5101 caaattcaga cggtgtctga taattcagcg tggagtgcgg gcggcattcg ttataatcct
     5161 gccgccagtc attaataatt ttcctggcat gaacgatatc gctgaaccag tgctcattca
     5221 aacattcatc gcgaaatcgt ccgttaaagc tctcaataaa tccgttctgc gttggcttgc
     5281 ccggctggat taagcgcaac tcaacaccat gctcaaaggc c
//
