LOCUS       NZ_CP058127             4841 bp    DNA     circular CON 09-APR-2024
DEFINITION  Klebsiella michiganensis strain RHBSTW-00167 plasmid
            pRHBSTW-00167_10, complete sequence.
ACCESSION   NZ_CP058127
VERSION     NZ_CP058127.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148522
            Assembly: GCF_013624375.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella michiganensis
  ORGANISM  Klebsiella michiganensis
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4841)
  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 4841)
  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                     :: WTP1 T1-00167
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 69.9496584429644x
            Sequencing Technology :: Hybrid: Illumina and PACBIO_SMRT
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_013624375.1-RS_2024_04_08
            Annotation Date                   :: 04/08/2024 10:24:09
            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)                     :: 6,406
            CDSs (total)                      :: 6,284
            Genes (coding)                    :: 6,107
            CDSs (with protein)               :: 6,107
            Genes (RNA)                       :: 122
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 177
            CDSs (without protein)            :: 177
            Pseudo Genes (ambiguous residues) :: 0 of 177
            Pseudo Genes (frameshifted)       :: 57 of 177
            Pseudo Genes (incomplete)         :: 135 of 177
            Pseudo Genes (internal stop)      :: 31 of 177
            Pseudo Genes (multiple problems)  :: 42 of 177
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP058127.1.
            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..4841
                     /organism="Klebsiella michiganensis"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00167"
                     /isolation_source="Freshwater sample from upstream of
                     wastewater treatment plant"
                     /db_xref="taxon:1134687"
                     /plasmid="pRHBSTW-00167_10"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(776..1177)
                     /locus_tag="HV105_RS31770"
                     /old_locus_tag="HV105_31765"
     CDS             complement(776..1177)
                     /locus_tag="HV105_RS31770"
                     /old_locus_tag="HV105_31765"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /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_117265036.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSVQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(1177..1368)
                     /locus_tag="HV105_RS31775"
                     /old_locus_tag="HV105_31770"
     CDS             complement(1177..1368)
                     /locus_tag="HV105_RS31775"
                     /old_locus_tag="HV105_31770"
                     /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_004187666.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1779..1892
                     /locus_tag="HV105_RS32370"
     CDS             1779..1892
                     /locus_tag="HV105_RS32370"
                     /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_112921092.1"
                     /translation="MHEPPVQSDCCALSGNYPLESNPERHAKAPLAAATGN"
                     /name="replication initiation protein"
     gene            2143..3111
                     /locus_tag="HV105_RS31780"
                     /old_locus_tag="HV105_31775"
     CDS             2143..3111
                     /locus_tag="HV105_RS31780"
                     /old_locus_tag="HV105_31775"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_076611102.1"
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="IS5 family transposase"
                     /protein_id="WP_181250256.1"
                     /translation="MKDQITHPPDNTDHSVAKQKFRITNWSTYNKALINRGSLTFWLDD
                     EAIQTWYESATPSSRGRPQRYSDLAITTVLVIKRVFRLTLRAAQGFIDSIFSLMNVPLR
                     CPDYTSVSKRAKSVNVSFKTSTRGEIAHLVIDSTGLKVFGEGEWKVRKHGKERRRIWRK
                     LHLAVDSNTHEVVCADLSLNNVTDSEAFPGLIRQTHRKIRAAAAGGAYDTRLCHDELRR
                     KKISALIPPRKGAGYWPGEYADRNRAVANQRLSGSNARWKWTTEYNRRSIAETAMYRMK
                     QLLGDSLTLRDYDGQVAEAMAMVRALNRMTKAGMPESVRIA"
                     /name="IS5 family transposase"
     gene            complement(3237..4757)
                     /locus_tag="HV105_RS31785"
                     /old_locus_tag="HV105_31780"
     CDS             complement(3237..4757)
                     /locus_tag="HV105_RS31785"
                     /old_locus_tag="HV105_31780"
                     /EC_number="1.11.1.6"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005249302.1"
                     /GO_function="GO:0004096 - catalase activity [Evidence
                     IEA]; GO:0020037 - heme binding [Evidence IEA]; GO:0046872
                     - metal ion binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="catalase"
                     /protein_id="WP_000076364.1"
                     /translation="MSQDPKKCPVTHLTTEAGAPVVDNQNSMTAGARGPLLAQDLWLNE
                     KLANFVREVIPERRMHAKGSGAFGTFTVTNDITQYTRAKIFSEVGKKTEMFARFSTVAG
                     ERGAADAERDIRGFALKFYTEEGNWDLVGNNTPVFFLRDARKFPDLNKAVKRDPKTNKR
                     SATNNWDFWTLLPEALHQVTIVMSDRGIPAGYRHMHGFGSHTFSFINAQNERFWVKFHM
                     RTQQGIQNLTDAEAADLIAKDRESSQTDLFDAIERGEYPKWKMYVQIMPELEAETVPYH
                     PFDLTKVWPKGDYPLIEVGEFELNRNPENYFQDVEQAAFAPSNLVPGISYSPDRMLQAR
                     LVNYADAARYRVGVNHSQVPVNAARCPVNSNRRDGQGRMDGNYGSLPHYEPNSFNQWQE
                     QPQFKEPALKITGDADFWDFREDDNDYFSQPRALFNLMNDEQKQALFNNTAAAMGDALD
                     FIKYRHIRNCYACDPAYGQGVAKALGMTVADAQAARETDPAKGLPSFL"
                     /name="catalase"
     Typing          1417..1892
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.06"
                     /coverage="92.0"
                     /evalue="0.0"
ORIGIN
        1 aaaatgttaa actaaggata tttttgaaaa tttcttttta tttaacataa tcccttcttg
       61 tacgcaccgc taaaacggcc tcaggacgtt tctgacggga aaccggtaaa acaggcaaca
      121 aaccacccga aaacccgcca gaaacgcgca ggctctgttt ttacggcatg catgagtatg
      181 cgcgcaagtg catagcgcgg aaattcacgc cattcagcca gggtaagtcc tgtttccggc
      241 gttcttctga tccgaaaacg gtgaacgggg acgcaattta ttgcgtggcc gtgaggcgtt
      301 gccggcgcag ccggaaaacc ggttttcagc acgttcagga atcgggttcg tcgacggccg
      361 gcaatcacgt tatggcaagt cgccggacga ctcaccacac gattcaccgg cgattcgaat
      421 cgtgaattga atcaagagtc accatgaaca aaaaacgccc aaattgatga attgaatcaa
      481 gagtcgattc atcataacaa catgataata aagcgtgatt cacatatgaa tcgtgggcaa
      541 ttcgtaaacg attcgccata gagtcgtcca cgacttggat ctgcactttg taacacatca
      601 ctgcacatta atttttcatt aaccaattgt tttaaataag gaatctgcaa aattttaatt
      661 ttgcgtagtg tgtgggtatt tttagtcgtg aggagcgttc agagatctgg cgatttttgg
      721 gaaggttcag gaactccctg ggatggccgg agaagaaaac tcaagcatgg caggatcagg
      781 attttttcca gaatttccac catggcgccg gagattcagt taattttgcc tggtgatttt
      841 caagaaggag catggcctgt ttcaggctgt caatgtgcga atccttggac aaaagtaagg
      901 tgttcaggtg ttcaatctcc tgtttcagat gacgaatcac ctgttcactc tggtcagcag
      961 aggctgtatc acgctgttca gagacctgta cagaatggtg ttcacccttc ggttgttcaa
     1021 agggaccaaa gacacgtaaa agctctgaag tatctaccat ttttgcattg cgttcaccgc
     1081 tacaggtgga caggtcacct gctttaatta acctgtgcag tgtcgttcta ctcttacccg
     1141 tcagtcgggc agcctcacta atagacactc tggccatcag ttaccatcct gtaatgcatc
     1201 cagtctcgag gacagtgtac ggaaaagatg ctccgcatca tcgtggagtt tctcacaaag
     1261 gtcggcttcg acatcgagat caagctcgtt aagcttctcc agcaggagca gagactgatt
     1321 ctggatgaat ttagccatat tcagggcagt tttctgttgt ttcgtcataa ggggcctcag
     1381 ggcgtcagtg ctcagtgtca aaccggtctc ttttccgctt cctcgctcac tcagtcgcta
     1441 cgctcctgcc gttcggctgc ggcgagcgga cgggacacac agaagagtca tcgcgataac
     1501 caggaagaaa agagcctgtg gaaaaggcca cggcgttgcc gtttttccat aggctccgcc
     1561 cccctgacaa gcatcacaaa atctgacgct caaatcagcg gtggcgaaac ccgacaggac
     1621 ttaaagatac caggcgtttc cccctggtgg ctccctcgtg cgctctcctg ttcctgcctt
     1681 tcggtttacc ggtgtcattc cgctgttatg gccgcgttta tctcattcca cgcctgacac
     1741 tcagttccgg gaaggcagtt cgctccaagc tggactgtat gcacgaaccc cccgttcagt
     1801 ccgactgctg cgccttatcc ggtaactatc ctcttgagtc caacccggaa agacatgcaa
     1861 aagcgccact ggcagcagcc actggtaact gatttagagg agatagtctt gaagtcatgc
     1921 gccagttaag gctaaactaa acgaacagtt ttggtgactg cgctcctcta actagccagt
     1981 tacctcggtt caaagagttg ctgctctgag aaccttcgag aaaaccgcct tgctgggcgg
     2041 ttttttcgtt tacagagcaa gagattacga cggcaaagaa aggatctcaa gaagatcctt
     2101 caccataatg ggctttgttg aataaatcga acttttgctg agttgaagga tcagatcacg
     2161 catcctcccg acaacacaga ccattccgtg gcaaagcaaa agttcagaat caccaactgg
     2221 tccacctaca acaaagctct catcaaccgt ggctccctca ctttctggct ggatgatgag
     2281 gcgattcaga cctggtatga gtcggcaacg ccttcatcac gaggaaggcc ccagcgctat
     2341 tctgatctcg ccatcaccac cgttctggtg attaaacgcg tattccggct gaccctgcgg
     2401 gctgcgcagg gttttattga ttccattttt tccctgatga acgttccgtt gcgctgcccg
     2461 gattacacca gtgtcagtaa gcgggcaaag tcggttaatg tcagtttcaa aacgtccacc
     2521 cggggtgaaa tcgcacacct ggtgattgat tccaccgggc tgaaggtctt tggtgaaggc
     2581 gaatggaaag tcagaaagca cggcaaagag cgccgtcgta tctggcgaaa gttgcatctt
     2641 gctgttgaca gcaacacaca tgaagttgtc tgtgcagacc tgtcgctgaa taacgtcacg
     2701 gactcagaag ccttcccggg ccttatccgg cagactcaca gaaaaatcag ggcagccgcg
     2761 gcaggcgggg cttacgacac ccggctctgt cacgatgaac tgcgccgcaa aaaaatcagc
     2821 gcgcttattc ctccccgaaa aggagcaggt tactggcccg gtgagtacgc agaccgcaac
     2881 cgtgccgttg ctaatcagcg gctgagcgga agcaatgcac ggtggaaatg gacaacggaa
     2941 tataaccgtc gctcgatagc ggaaacggca atgtacagaa tgaagcagtt gttgggagat
     3001 tcactgacgc tgcgtgacta cgatggtcag gtagcggaag ctatggccat ggtgcgtgcg
     3061 ttgaacagga tgacaaaggc cgggatgcca gaaagcgtgc gtattgcctg aaaatccagc
     3121 cagctacagg gtcgttcgca cgaaatctta tttattcaac aaagccgcac caaatacgaa
     3181 aaaccccgac aggatgtcgg ggttttttta ttaactatct aaatcaaatt tccacattaa
     3241 agaaaacttg gtaaaccttt agcaggatct gtttcacgtg ccgcttgagc atctgctaca
     3301 gtcataccta aggccttagc aacgccttgc ccataagctg gatcgcaagc ataacagttg
     3361 cggatatgac ggtatttgat gaaatctagc gcatcaccca tcgctgcggc cgtgttatta
     3421 aacaatgctt gtttctgctc atcattcatc aaattgaaca gggcacgggg ctggctgaag
     3481 tagtcattgt catcttcgcg gaagtcccag aaatcagcat caccggtaat ctttaatgct
     3541 ggttctttaa actgaggttg ttcctgccac tggttaaaac tgttcggttc ataatgtggc
     3601 aatgaaccat agttgccatc catgcggccc tgaccatcac gacgattaga gtttacaggg
     3661 cagcgtgcag cattgaccgg aacctgtgaa tgatttacac caacacgata acgtgctgca
     3721 tcagcatagt tcaccagacg tgcctgtaac atacgatccg gtgagtagct aattcccggt
     3781 accagattgc ttggtgcaaa ggcagcctgt tctacatcct ggaaataatt ttccggattg
     3841 cggttcagtt cgaattcacc gacttcaatc agtggataat cacctttcgg ccagactttg
     3901 gtcaggtcaa atggatgata aggaactgtt tcagcttcca gttccggcat gatctgaacg
     3961 tacattttcc attttggata ctcaccacgc tcaatggcat caaataagtc agtctgacta
     4021 ctttcacgat ctttagcaat caaatctgct gcttcagcat cggtcaggtt ctggatgcct
     4081 tgctgggtac gcatatggaa tttcacccag aagcgttcat tttgggcatt gataaaactg
     4141 aaggtatggc tgccaaaacc atgcatatga cggtagccag caggaatacc gcgatccgac
     4201 atcacaatgg tcacctgatg caaggcttca ggcaataatg tccagaaatc ccagttattg
     4261 gtggcactgc gcttgttggt tttcgggtca cgtttgactg ctttattcag gtcagggaac
     4321 ttacgggcat cccgcaggaa aaacaccggg gtattattgc cgaccagatc ccagttgcct
     4381 tcttcagtat agaatttcag ggcaaaacct cgaatatcac gttctgcatc ggccgcgcca
     4441 cgttcacccg ccaccgttga gaaacgcgca aacatttcgg tttttttgcc gacttcagag
     4501 aaaattttag cgcgagtata ttgggtaata tcattggtca cggtaaaggt accaaaagca
     4561 cctgaacctt tagcgtgcat acgacgctct ggaatcactt cgcggacgaa gtttgctaat
     4621 ttttcattca accataaatc ttgggcaagt aaaggtccac gcgcacctgc cgtcatactg
     4681 ttctgattat cgaccacagg agcaccagct tcagtagtca ggtgggtaac aggacatttt
     4741 ttagggtctt gactcatact attaactccc gtgtctttta atttaaattt cctgcagaaa
     4801 tttaagattt tcaatcctat cttacccttt acttgcttat t
//
