LOCUS       NZ_CP056143             4114 bp    DNA     circular CON 03-SEP-2023
DEFINITION  Klebsiella michiganensis strain RHBSTW-00909 plasmid
            pRHBSTW-00909_8, complete sequence.
ACCESSION   NZ_CP056143
VERSION     NZ_CP056143.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15148741
            Assembly: GCF_013732655.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella michiganensis
  ORGANISM  Klebsiella michiganensis
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4114)
  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 4114)
  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 T3-00909
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 120.157574954315x
            Sequencing Technology :: Hybrid: Illumina and OXFORD_NANOPORE
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/02/2023 16:20:10
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 6,484
            CDSs (total)                      :: 6,360
            Genes (coding)                    :: 6,136
            CDSs (with protein)               :: 6,136
            Genes (RNA)                       :: 124
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 224
            CDSs (without protein)            :: 224
            Pseudo Genes (ambiguous residues) :: 0 of 224
            Pseudo Genes (frameshifted)       :: 83 of 224
            Pseudo Genes (incomplete)         :: 171 of 224
            Pseudo Genes (internal stop)      :: 42 of 224
            Pseudo Genes (multiple problems)  :: 62 of 224
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP056143.1.
            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..4114
                     /organism="Klebsiella michiganensis"
                     /mol_type="genomic DNA"
                     /strain="RHBSTW-00909"
                     /isolation_source="Wastewater influent sample"
                     /db_xref="taxon:1134687"
                     /plasmid="pRHBSTW-00909_8"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            complement(join(2915..4114,1..60))
                     /gene="mobQ"
                     /locus_tag="HV324_RS32100"
                     /old_locus_tag="HV324_32110"
     CDS             complement(join(2915..4114,1..60))
                     /gene="mobQ"
                     /locus_tag="HV324_RS32100"
                     /old_locus_tag="HV324_32110"
                     /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="MobQ family relaxase"
                     /protein_id="WP_063660742.1"
                     /translation="MALYRLEMQNVSRANGVSSVAKAAYRHRSVMVDHRTGEIHGEKSA
                     NRDDLVYAEILAPDNTPDFLIKSSNDLWGFVEQTERRKDARTAKEFKITLPCDLSNEQN
                     IELMKDFLLNHFVDKGIICDFVLHNDKDNKNPHAHVMITTREITPSGFGKKVREWDTEE
                     TLHKWRKDWAKVQNKHLKNAGLKSRVSHRTLEEQKNIMIDLAKKAEDAKDFDKSILYLA
                     KAIELDRPPMQNLSRKKWRSKEGQEQRKRDQAIRDKAREDARAVRVLRGVAVVDVASFT
                     VQPLQKKEQSKDNDFSEKKSWWRSTVNFIKNIKAKFSTKKDIKPVQEKEPDLMIDPVTG
                     LPITTEKWQEMSDRANVRTPQAEISYKVRQSDGEGLKTAQNALQDVLDVSGGKTVKVKS
                     VPVPGSRRRRVIEEDSSDKG"
                     /name="mobQ"
     gene            359..778
                     /locus_tag="HV324_RS32105"
                     /old_locus_tag="HV324_32115"
     CDS             359..778
                     /locus_tag="HV324_RS32105"
                     /old_locus_tag="HV324_32115"
                     /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="hypothetical protein"
                     /protein_id="WP_063660743.1"
                     /translation="MDFYNHEFYKNNKIIRDKIEQYFYGSRDYNFKKLKKAEKDFFNSV
                     LIEFIDECKREREEEGTKNFKASVRMVLNNHRIKEKELKNDSFYFMTQSEIKNKSKKWH
                     YDVILKSALSISTWETSGVWCDYDIVYVRSNDHGE"
                     /name="hypothetical protein"
     gene            768..1046
                     /gene="traD"
                     /locus_tag="HV324_RS32110"
                     /old_locus_tag="HV324_32120"
     CDS             768..1046
                     /gene="traD"
                     /locus_tag="HV324_RS32110"
                     /old_locus_tag="HV324_32120"
                     /inference="COORDINATES: protein motif:HMM:NF018152.3"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="conjugal transfer protein TraD"
                     /protein_id="WP_063660744.1"
                     /translation="MASKKTLEQKLALAQDRLSKLKKEASQKERKAREHKKFTVGGEVT
                     RVFGLDYDLALVVGFLEHFNKLSDEQKQALKSNGERLLKSRLENADK"
                     /name="traD"
     gene            1179..1454
                     /locus_tag="HV324_RS32115"
                     /old_locus_tag="HV324_32125"
     CDS             1179..1454
                     /locus_tag="HV324_RS32115"
                     /old_locus_tag="HV324_32125"
                     /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="hypothetical protein"
                     /protein_id="WP_142910770.1"
                     /translation="MSQKKEQKTAEKPTAGPLRKHRTRTEKIDDLKKQISDLRKAEREE
                     RQRARDEKLLAIGKAVYEKAGKPKNIYGLQQFVESEEFKVDFKNDF"
                     /name="hypothetical protein"
     gene            complement(1471..1740)
                     /locus_tag="HV324_RS32120"
                     /old_locus_tag="HV324_32130"
     CDS             complement(1471..1740)
                     /locus_tag="HV324_RS32120"
                     /old_locus_tag="HV324_32130"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001549724.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0003700 - DNA-binding transcription factor activity
                     [Evidence IEA]; GO:0016987 - sigma factor activity
                     [Evidence IEA]"
                     /GO_process="GO:0006352 - DNA-templated transcription
                     initiation [Evidence IEA]; GO:0006355 - regulation of
                     DNA-templated transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="sigma factor-like helix-turn-helix DNA-binding
                     protein"
                     /protein_id="WP_063660746.1"
                     /translation="MKGNEIRKGLTQKEMAKKFNLSLSTVKKYTSQPREYYESEAEKRR
                     KTAYILHHEKGLKWRDVAEKMNATENAVKALAKRYKQIDQENRG"
                     /name="sigma factor-like helix-turn-helix DNA-binding
                     protein"
     gene            complement(1737..2594)
                     /locus_tag="HV324_RS32125"
                     /old_locus_tag="HV324_32135"
     CDS             complement(1737..2594)
                     /locus_tag="HV324_RS32125"
                     /old_locus_tag="HV324_32135"
                     /inference="COORDINATES: protein motif:HMM:NF015076.3"
                     /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_117150476.1"
                     /translation="MILQKEYSRSDFINQIISRPFCTDDFKRDGIYRTNKRRALNSVYI
                     EHNNDSFINSIVFDIDSDTAAIAWQDADIPKPNFITQNPANGHAHLFYALSSPVCITEN
                     ARRKPQKLLKGVIEGLTERLGADPCYTGKITKNPLNPRWRTFWNEQPRFELNYLCEFID
                     TNKRVKKEVRKSIVAEGRNTALFDTLRFYAYSIIFKYQKNDDFCGFMSALQEEAENIND
                     SFEDQLGFKEINHTIRSISSWVWGTFDSDTFSEIQSNRAKKAKGKTKTNTKAKKLIEFI
                     GVKK"
                     /name="replication initiation protein"
     Typing          complement(2919..4084)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="85.861"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aactgagctg acaccatttg cacggcttac gttctgcatt tctaacctat ataaagccat
       61 atgttaatac ctcataaata gaacccctat ttttgttttg ggttttggtt ttagtttttc
      121 gtaagaaaaa caggttttag cctcgcagag accgggcatt acgaagtaat gcgtaaccgg
      181 gcattcctta tcttttattt tttcgctgac gctcaaacta aaagaggaat gaaaacctat
      241 atagtttttc tttcgttgat atatataaat taacgctgat taaatcaaag tcaaatttga
      301 caatatatta aagttacgat atttgaataa aaataaaaca aaaaagtgag gtttctgtat
      361 ggatttttat aaccatgagt tttataaaaa caacaagatt attagagata agatagagca
      421 gtatttttac ggaagtagag attataactt taagaagtta aaaaaagctg agaaagattt
      481 ctttaactct gttcttattg agtttataga tgagtgcaag agagaaagag aagaggaggg
      541 gacaaaaaac tttaaagcat ctgtaagaat ggttcttaat aatcatagaa taaaagaaaa
      601 agaattgaag aatgattctt tctactttat gactcaatca gagattaaga ataagtccaa
      661 aaaatggcat tacgatgtga tattaaaaag cgccctttct atttcgacgt gggaaacatc
      721 gggcgtatgg tgtgattatg atattgttta tgtaaggagt aacgatcatg gcgagtaaga
      781 aaacattaga acaaaaatta gcattagcac aagatagatt atctaaactt aaaaaagaag
      841 catcgcagaa agaaagaaaa gctagagaac ataaaaaatt tactgttggc ggtgaggtta
      901 caagggtctt cggtttagat tacgatctag ctcttgtggt aggttttctt gaacacttta
      961 acaagttaag cgacgagcaa aaacaagcgt taaaaagcaa tggtgaaaga ttgctaaaat
     1021 cacgtctaga aaacgctgac aagtgacaga tttctaatct gacacttgga agggttgaac
     1081 aagcaagaac ccgccagcgg cggggcttgt gcgttagtct tcaccgtatc ccggctttgt
     1141 ggtatgttta aaaaacatat catccgggag agtgaaaaat gtctcaaaaa aaagagcaaa
     1201 aaacagcaga aaaaccaact gcagggccac tgagaaaaca cagaactaga actgaaaaaa
     1261 tagacgattt gaaaaaacag atcagcgatt tgagaaaagc agaaagagaa gagcgccaac
     1321 gggcacgaga tgaaaagtta cttgccattg gtaaagctgt ttatgaaaaa gcaggaaaac
     1381 cgaaaaatat ttatggcttg cagcagtttg tggagtcaga agaatttaaa gtggatttta
     1441 aaaacgattt ctaatcatga aaggggcatt ttagcccctg ttttcttggt ctatttgttt
     1501 atatcttttt gctaatgctt taactgcatt ttctgttgca ttcatttttt cagcaacatc
     1561 acgccatttt aagccttttt catgatgtaa tatatacgct gtttttcttc ttttttctgc
     1621 ttctgattca taatattctc ttggttgaga agtgtatttt tttacagtgc ttaaagaaag
     1681 attgaacttt ttagccatct ctttttgtgt taagcccttt cttatctcgt tgcctttcat
     1741 ttttttactc ctataaattc tataagtttt tttgcttttg tattggtttt agttttgcct
     1801 ttcgctttct ttgctctgtt gctttgtatt tcgctgaaag tatcactatc aaaagtcccc
     1861 catacccaag aagaaatgct tcttattgtg tggtttattt ctttaaagcc aagttgatct
     1921 tcgaatgaat cgtttatgtt ttcagcttct tcttgtaatg ctgacatgaa accgcagaaa
     1981 tcgtcatttt tttgatattt aaaaattatg ctgtaagcgt aaaaacgcag agtatcaaat
     2041 aaagctgtat ttcttccctc tgcaactatt gattttctta cttctttttt tactctttta
     2101 tttgtatcta tgaattcaca tagatagttc aattcaaatc ttggttgttc gttccaaaat
     2161 gtacgccatc tcggattgag cgggtttttt gttatcttgc ccgtataaca tggatctgca
     2221 cctaaccttt ctgtgagtcc ttctataacg cctttcaaga gtttttgtgg ctttcttctg
     2281 gcgttttctg ttatacaaac aggagacgat aaagcataaa ataaatgagc gtgaccatta
     2341 gccggatttt gagttataaa gttaggcttc ggtatatctg catcttgcca tgcaatagcc
     2401 gctgtatcgc tgtcaatatc aaacacaata gagttaataa agctatcgtt gttatgctcg
     2461 atataaacgc tgtttaaagc tcgtcttttg tttgttctat aaataccatc tcttttaaaa
     2521 tcatcagtgc agaaaggtct tgatataatt tgatttataa aatcacttct gctatattct
     2581 ttttgtagta tcatttttta atacaatcct tttattgtag atccctgatt ttctcctgtc
     2641 gccaaacatt cggaaaatca gggatttttg tttttatatt actgttctaa cagaaccttt
     2701 catggtgtca agtagtcacc actaaaaaaa gtgtcaagtg gtcattttag ccatatcagg
     2761 taataatggg tttgggggta tttttgcgaa gcacaggccg gaggcttcaa atcattgcca
     2821 gtaaagccat accctgaacc tacaaggccg gaggctatga gcgaagccct gtaaaactct
     2881 acgtttgaac gcaggatctg gctgtgctgg ttggttaacc cttgtcactg ctgtcttcct
     2941 cgataactcg acgcctacga gaacccggaa ccggcacaga tttcactttg acagttttac
     3001 cgcctgatac gtctaaaacg tcctgtaacg cattctgagc cgtttttagc ccttccccgt
     3061 ccgattgcct taccttgtac gaaatctccg cctgtggagt ccttacgttt gccctgtcac
     3121 tcatctcctg ccatttctcc gttgtaatag gtaaaccagt gaccggatca atcattaaat
     3181 caggttcttt ttcttgaacg ggtttaatat cttttttggt tgagaactta gctttaatat
     3241 tttttataaa attaacagta gaacgccacc acgatttttt ttctgaaaag tcattatctt
     3301 ttgactgctc ttttttctgc agcggttgaa ctgtgaatga agcaacatca acaactgcaa
     3361 cacccctcaa caccctgaca gcccttgcat cttctcttgc cttgtctctg atcgcttggt
     3421 cacgtttgcg ttgttcctgc ccttctttag aacgccattt tttacgtgat aggttctgca
     3481 tcggcgggcg atctagttca atagcttttg ctaaatataa aatagacttg tcaaaatcct
     3541 ttgcatcttc tgctttttta gctaaatcga tcattatgtt tttttgttct tctagcgttc
     3601 tatgacttac acgagatttt aagccagcat tttttaaatg cttattttga actttcgccc
     3661 aatccttacg ccatttgtgc agcgtttctt ctgtatccca ttctctgact tttttaccga
     3721 aacctgacgg ggttatttca cgggtagtaa tcataacatg agcgtgcggg tttttattgt
     3781 ctttatcatt atgtaaaaca aagtcacata tgatgccttt atcgacaaag tgatttaata
     3841 aaaaatcttt cataagttct atgttttgtt cattagacaa atcacatggt aacgttattt
     3901 tgaattcttt tgcagttcta gcatcctttc tcctctctgt ttgttcgaca aaaccccata
     3961 aatcgttact cgatttaatg agaaaatcgg gcgtgttatc tggtgctaat atttcagcat
     4021 aaactagatc gtcacgatta gctgatttct cgccgtgtat ttctcccgtt ctatggtcaa
     4081 ccataaccga acgatgacga taagccgcct ttgc
//
