LOCUS       NZ_CP056171             5365 bp    DNA     circular CON 04-APR-2024
DEFINITION  Enterobacter roggenkampii strain RHBSTW-00695 plasmid
            pRHBSTW-00695_4, complete sequence.
ACCESSION   NZ_CP056171
VERSION     NZ_CP056171.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148685
            Assembly: GCF_013733395.1
KEYWORDS    RefSeq.
SOURCE      Enterobacter roggenkampii
  ORGANISM  Enterobacter roggenkampii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Enterobacter; Enterobacter cloacae complex.
REFERENCE   1  (bases 1 to 5365)
  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 5365)
  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 T2-00695
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 93.5654070765511x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_013733395.1-RS_2024_04_04
            Annotation Date                   :: 04/04/2024 05:14:13
            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)                     :: 4,933
            CDSs (total)                      :: 4,818
            Genes (coding)                    :: 4,681
            CDSs (with protein)               :: 4,681
            Genes (RNA)                       :: 115
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 137
            CDSs (without protein)            :: 137
            Pseudo Genes (ambiguous residues) :: 0 of 137
            Pseudo Genes (frameshifted)       :: 45 of 137
            Pseudo Genes (incomplete)         :: 74 of 137
            Pseudo Genes (internal stop)      :: 29 of 137
            Pseudo Genes (multiple problems)  :: 12 of 137
            Pseudo Genes (short protein)      :: 1 of 137
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP056171.1.
            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..5365
                     /organism="Enterobacter roggenkampii"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00695"
                     /isolation_source="Wastewater effluent sample"
                     /db_xref="taxon:1812935"
                     /plasmid="pRHBSTW-00695_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(5214..5365,1..172))
                     /locus_tag="HV268_RS24495"
                     /old_locus_tag="HV268_24500"
     CDS             complement(join(5214..5365,1..172))
                     /locus_tag="HV268_RS24495"
                     /old_locus_tag="HV268_24500"
                     /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_170864053.1"
                     /translation="MLTMWVTEDEHRRLLERCDGRPLAAWMRQTCLDEKPARTGKLPSI
                     SPALLRQLAGMGNNLNQIARRVNAGGGTGHDRVQIVAALMAIDAGLERLRHAVLEKGTD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            858..989
                     /locus_tag="HV268_RS24845"
     CDS             858..989
                     /locus_tag="HV268_RS24845"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_072007956.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPKRHAKAPLAAATGNRIHGAE"
                     /name="replication initiation protein"
     gene            complement(1209..2018)
                     /locus_tag="HV268_RS24500"
                     /old_locus_tag="HV268_24505"
     CDS             complement(1209..2018)
                     /locus_tag="HV268_RS24500"
                     /old_locus_tag="HV268_24505"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010222407.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_032446875.1"
                     /translation="MSKDKKERSKNRYHQLVEKIFFDKYVDGDLEVLFERLDINSAAKD
                     LGIELPSNVGDVIYSIRFRTPMPESILLTQPEGKEWIIELAGRSKYRFRLVTISRILPN
                     PNMVAIKIPDNTPEIITGYSLDDEQALLAKVRYNRLIDIFLGITTYSLQNHLRTTVKGI
                     GQIEIDELYVGIDKYGCHYIIPVQAKGGTDQISMVQTSQDTAWCEQKYPNVRCRAISAQ
                     FVSSDLIALFELKIDEGQVKLIEERHYKLVPVKELDSSDISNYRMSV"
                     /name="hypothetical protein"
     gene            complement(2011..3261)
                     /locus_tag="HV268_RS24505"
                     /old_locus_tag="HV268_24510"
     CDS             complement(2011..3261)
                     /locus_tag="HV268_RS24505"
                     /old_locus_tag="HV268_24510"
                     /EC_number="2.1.1.37"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015160339.1"
                     /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_001584442.1"
                     /translation="MTRPIAVDLFAGAGGLSLGFEQAGFDIMASVEIDPIHCSAHKYNF
                     PMCKTICRSVVDVTGEYVREVSGIGEKEIDVVIGGAPCQGFSLIGKRALDDDRNKLVYH
                     YVRLVLELKPKYFVFENVKGLTVGKHKQFLVEIMDAFKDGGYDVVSDYKVLNAADYGVP
                     QDRRRLFLMGGRKGIALPSYPEPLSIRTTVGDAIGDIPDAEKYPELWGRDWVYAKFGEQ
                     SLYSSYLHGVGKDPSDFSYPRIFNKDKLTCSLLTDHSDISRGRFVETLPDTVEPISRFK
                     KLSMNGLCNTLRAGTASDRGAFTSPRPIHPIYPRVITVREAARLHSYPDWFRFHVTKWH
                     GFRQVGNSVPPMLARSVGLQIMKVLGVTPKKPTKKIKLGDESLVAISMSDAASMFGVSS
                     NVIAKRIKNSNKEVVCE"
                     /name="DNA cytosine methyltransferase"
     gene            complement(3823..4038)
                     /locus_tag="HV268_RS24510"
                     /old_locus_tag="HV268_24515"
     CDS             complement(3823..4038)
                     /locus_tag="HV268_RS24510"
                     /old_locus_tag="HV268_24515"
                     /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_137500696.1"
                     /translation="MTELEKQLLSALEQLQQDYSQRLDEWESAFAEWRSMCGLMQRENA
                     VLNERVSYLSTQVLSLSEQLRRLSGN"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(4045..4536)
                     /locus_tag="HV268_RS24515"
                     /old_locus_tag="HV268_24520"
     CDS             complement(4045..4536)
                     /locus_tag="HV268_RS24515"
                     /old_locus_tag="HV268_24520"
                     /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_048237138.1"
                     /translation="MSSLLTLAKDLEQQSKAQQQSTGEMLKAAFSEHEQSVRAELSASA
                     RRISDAILAHEQSMSEAMEKNRRSLLRTAGRTWLTILMVSALLIGTSGSILWWQGQQIT
                     DNYTHLRQQEDTLAKMTARTWGVRYQESSDGRRFLILPPGMQTEAIPYDGTTWIRLKQE
                     "
                     /name="MbeB family mobilization protein"
     gene            complement(<4571..5275)
                     /locus_tag="HV268_RS24925"
                     /old_locus_tag="HV268_24525"
                     /pseudo=""
     CDS             complement(<4571..5275)
                     /locus_tag="HV268_RS24925"
                     /old_locus_tag="HV268_24525"
                     /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"
     Typing          complement(274..459)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="88.36"
                     /coverage="86.0"
                     /evalue="3.460000000000001e-56"
     Typing          602..986
                     /name="rep_cluster_2373"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.832"
                     /coverage="89.0"
                     /evalue="2.91e-169"
     Typing          complement(3..172)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.982"
                     /coverage="98.0"
                     /evalue="8.34e-29"
     Typing          complement(3732..5224)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.8"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(5221..5363)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.667"
                     /coverage="98.0"
                     /evalue="2.44e-20"
ORIGIN
        1 tgcccatgcc ggcaagctgg cgcagcagcg ccggcgagat tgaggggagc tttccggtgc
       61 gcgcaggctt ttcgtccagg caggtctgcc gcatccaggc cgccagcggc ctgccgtcac
      121 agcgctcaag cagccgccgg tgctcgtcct ccgtcaccca catggtgagc atcttgttcc
      181 gtttctctga caaaccggcc tcctgataac gccgggacgg gcgggaaagc ctttcccggt
      241 cggcgcgggg ttggacaagc cgcaggcgcg tcaggctttt ggcgggtttc ggggcgcagc
      301 cctgaaccag tcacgcagcg ctagcggagt gtatactggc ttagtatgtt acggcgagat
      361 ggagattcgg ggaagtgctt catgtggcaa gggggaaaat acggctgggg gcgtaagtgc
      421 aaaatgcagg taacgatgaa atgacgcctc ctcgctcact cggtcgctgc gctcctgccg
      481 tgagactgcg gcgggcgtta ccagctcacg aaggacgaga taacgagatc gcgctcaagt
      541 caggaaagtc aggaaagtca ggaaagtcag gaaagtcagg aaagtcagga aagtcaggaa
      601 aaaggatgcg gcgttgccgt ttttccatag gctccgcccc cctgacaagc atcacaaaat
      661 ctgacgctca aatcagtggt ggcgaaaccc gacaggacta taaagatccc aggcgtttcc
      721 ccctggtagc tccctcgtgc gctctcctgt tcctgccttt cggtttaccg gtgtcattcc
      781 gctgttatgg ccgcgtttgt ctcattccac gcctgacact cagttccggg taggcagttc
      841 gctccaagct ggactgtatg cacgaacccc ccgttcagtc cgactgctgc gccttgtccg
      901 gtaactatcg tcttgagtcc aacccgaaaa gacatgcaaa agcgccactg gcagcagcca
      961 ctggtaatcg gattcacgga gcggagtaga gttatctaca gagttcttga agtggtggcc
     1021 tgactacggc tacactgaaa ggacagtttt ggtatctgcg ctccgtgaaa gccagttacc
     1081 ttcggaagaa agagttggta gctctaaatt ccggcaaacg aaccaccgtt ggtagcggtg
     1141 gtttttttgt ttacggctta ggagattacg gctagaacga aaggatctca agaagatcct
     1201 ctcagaaatt atacagacat gcggtagttt gagatgtcag agctatctaa ctcttttacc
     1261 ggaaccagtt tgtaatgcct ttcctcaatc aatttcactt gtccttcgtc tatctttagc
     1321 tcaaacagtg caatcaaatc gctcgaaaca aactgagcgg aaatagctct acatctaaca
     1381 tttgggtatt tttgttcaca ccacgctgta tcttgcgatg tttgcaccat tgatatttga
     1441 tctgtcccac cttttgcttg aactggtatt atataatggc aaccgtattt atctatacct
     1501 acataaagtt catcgatctc tatttgacca attcccttca ccgtagttct taaatgattc
     1561 tgtaaagaat atgtggttat acctagaaat atatctatta gccggttata tctcaccttc
     1621 gccagcaatg cctgctcgtc gtctaaagaa taacctgtaa ttatctccgg ggtattgtct
     1681 ggaattttta ttgccaccat attaggattt ggcaaaatcc tactaatagt tactaatcta
     1741 aatcgatact ttgacctacc agccagctca ataatccact ccttaccttc tggctgagtc
     1801 aacagaatac tttctggcat aggcgttcta aatctgattg aatatataac atcaccaaca
     1861 ttagatggga gttctatacc taaatctttt gcagcactgt ttatatctaa cctttcaaac
     1921 aaaacctcta agtcaccatc aacatattta tcgaaaaata tcttttctac caactgatgg
     1981 tatctatttt tggacctttc ttttttatcc ttactcacaa acaacctcct tgttactatt
     2041 ttttattctc ttagcaatta catttgatga cacaccaaac atagatgcag catcggacat
     2101 agaaatagca accaaacttt catcaccgag tttgattttc ttcgttggtt tttttggcgt
     2161 aacaccaaga accttcataa tctgcaagcc aacacttcta gctagcatag gaggaacact
     2221 attaccgacc tgtctaaatc catgccactt agtcacatga aatctgaacc aatcaggata
     2281 tgaatgcagt cttgctgcct ctctgaccgt gatgacccta ggatagatcg gatgtatagg
     2341 acgaggagat gtaaaagcac ctctgtcact tgctgttcct gcccttaaag tattacatag
     2401 cccattcatc gagagctttt taaacctgct gattggttct accgtgtcag gcaaagtttc
     2461 aacaaaccgc cctctagaaa tgtcagagtg atctgtcagt aaagaacacg ttaatttgtc
     2521 tttattaaaa atccttgggt agctaaaatc actaggatct tttcctacgc catgcaaata
     2581 ggatgagtat agtgattgct caccaaattt agcataaacc caatctctac cccatagctc
     2641 aggatatttt tccgcatcag gaatatcccc aatagcgtcc ccaaccgttg ttctaatgga
     2701 taatggctca gggtatgatg gcagagcaat tcctttcctt ccccccatta agaaaagacg
     2761 acggcgatct tgaggaactc cataatcagc tgcgtttagc actttataat cgcttacaac
     2821 gtcgtacccg ccatctttaa atgcatccat tatctctact aaaaactgct tatgcttacc
     2881 aaccgtcaac ccttttacat tttcaaaaac aaagtattta ggctttagct caagaaccag
     2941 ccgtacatag tgatagacca gtttgtttct atcatcatca agcgcgcgtt ttcctattaa
     3001 tgaaaagcct tggcagggag cgcctccgat cactacatca atctctttct caccaatacc
     3061 tgaaacttcc ctaacgtatt ctccggtaac atcaacaaca cttctacata tcgttttgca
     3121 cataggaaag ttatatttgt gagcagagca atgtattgga tctatttcaa ctgatgccat
     3181 tatatcaaag ccagcttgct cgaaaccgag actcagccca cccgctccag caaataaatc
     3241 aacagcaatc ggtctagtca ttctttacac ccacgttata taaaatcaac atgatgctat
     3301 cagaaaaacg atcgctttac cgatcgtttt tctgatttcg attgaacata acatctcttg
     3361 tcggcaccgc tccggacggg ttcgccacaa acggggcggc agtcaggtaa aaccggcaac
     3421 aaaccacccg atacaccgcc ccgttcgtga cagataaatt ttacccggct gcatagccat
     3481 gcagccagat gcatggcgtg taaagtcaca ctaaaatcag cgcgaacgcc ttaaaaacag
     3541 gtaaatgctt ctccagccag tcccacagcc cggccgccag atacaggcag ttaagtacag
     3601 cttcaatgac gttaagcaat ttcataattc ccccccaggt ataggccgtg atctttttga
     3661 tcacgaacct atttagcggg agaagtaaga gtccctcttc gtgcgggttg tcagctgtct
     3721 ggatggttta aagtgtcggc ccgcggtagg ttttctgcgg ctggcgctcc agctccagtg
     3781 ttttctgata ctcattctcc ctctgccgga gctcgatggc attcagttcc cggacaagcg
     3841 gcgcagctgc tcgcttaaac tcagcacctg cgtgctcaag tacgacacgc gctcgttcag
     3901 caccgcgttc tcccgttgca taagcccaca catgctccgc cattccgcga aggcgctctc
     3961 ccattcgtcc agcctttgcg agtagtcctg ctgtagctgc tctaatgcgc tcagcaactg
     4021 cttttccagc tctgtcatct tccgctactc ctgtttcagg cggatccatg tcgtcccgtc
     4081 gtaagggatg gcttcggttt gcatccccgg cggcaggata agaaacctcc ggccgtcgct
     4141 gctctcctga tagcgcactc cccacgtccg ggcggtcatt ttcgccaggg tatcttcctg
     4201 ctgacgaaga tgcgtgtaat tgtcggttat ctgctgcccc tgccaccaca gtatgctccc
     4261 gctcgtgccg atcagcagcg ctgacaccat caggatggtg agccatgtcc gcccggcagt
     4321 ccgcagtaag ctccgccggt ttttctccat cgcctcgctc atactctgct cgtgggcgag
     4381 gatggcgtcg ctgattctcc tcgcgcttgc gctcagttcc gctctgacag actgctcgtg
     4441 ctcgctgaat gcggctttca gcatctcgcc ggtactctgc tgctgcgctt tcgattgctg
     4501 ctctaagtcc ttcgccagcg ttaaaagact gctcatagat ggctcccttc agtcggatgt
     4561 ttcgcccccc gtccgggtcg gcaatgctga tactgctttt cgtggtgcgt accacctcaa
     4621 aacctgaccg ttccagcgcc tcagtgacgt cctgacgggt tttcagctcc ccggacgaag
     4681 caaggatcag cagtccgcgc gtgatggctt ctgcggcctc ctgcttcgtt ttcggcagtc
     4741 cggacggcgt gaccagcgcc cggcggtttt ccggcgcgtt cgggtcgtgc agccccagtc
     4801 tgccgttcac gatggtctgc caggcatcga tacgcggccg gtcggcgagg tcgtagtacg
     4861 gctggagccg cctgccggtc agcagctcgg tattggggat cagaaagttc agctccagac
     4921 gccccttgtc cgcgtgctcc acccacagaa tgctgtactg atctttatca agtccgggta
     4981 tcagaacccg ctcgaagctg gccatcagtt tttcccgctg gccgggaggc agatcggcct
     5041 ccgcaaacga caggacgccg gaggtgtatt tcttcacgta aggcgacgcg tcaatcagct
     5101 cccggacttc gtccggcttc ccctgcagga cgctggcgcc ttcacgctgc cggtctttac
     5161 ccagcagata gtccaccggc ccggcgccac cgccgcgacc gcgtggatga aatttaacga
     5221 tcatcgtccg ttcctttctc aagaacggcg tgccgcagcc gctcaagccc ggcatcgatg
     5281 gccatcagcg ccgccacaat ctgtaccctg tcatggccgg tgccgccgcc ggcgttaacg
     5341 cggcgggcta tctggttcag gttat
//
