LOCUS       NZ_CP058125             5087 bp    DNA     circular CON 09-APR-2024
DEFINITION  Klebsiella michiganensis strain RHBSTW-00167 plasmid
            pRHBSTW-00167_8, complete sequence.
ACCESSION   NZ_CP058125
VERSION     NZ_CP058125.1
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 5087)
  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 5087)
  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
            CP058125.1.
            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..5087
                     /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_8"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2017"
     gene            join(4684..5087,1..94)
                     /locus_tag="HV105_RS32215"
     CDS             join(4684..5087,1..94)
                     /locus_tag="HV105_RS32215"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020325392.1"
                     /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_020325392.1"
                     /translation="MSSLLTASRDFEEKSKAQQQLTEERLKAAFSKHENVVKSELNASA
                     KRINDAISAHEQGMNAAMQSNRLSVLRMVGRTWLTITMVSGLLFASLSGVLWYQGNRIA
                     ANLAEIRQQRDTLSKLQMQTWGVTYLENRNGRFLVLPEGMKAETGRTVDNKTRNAVKLV
                     RE"
                     /name="MbeB family mobilization protein"
     gene            101..316
                     /locus_tag="HV105_RS31710"
                     /old_locus_tag="HV105_31705"
     CDS             101..316
                     /locus_tag="HV105_RS31710"
                     /old_locus_tag="HV105_31705"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015328239.1"
                     /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_015328239.1"
                     /translation="MTELEKQLLSALEQLQQDYSRRLDEWESAFEEWRKMSGLMQRENA
                     ALSERVSGLSRQVQSLSEQLRRLSTG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            752..1585
                     /locus_tag="HV105_RS31715"
                     /old_locus_tag="HV105_31710"
     CDS             752..1585
                     /locus_tag="HV105_RS31715"
                     /old_locus_tag="HV105_31710"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008196747.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0000287 - magnesium ion binding [Evidence IEA];
                     GO:0009036 - type II site-specific deoxyribonuclease
                     activity [Evidence IEA]"
                     /GO_process="GO:0009307 - DNA restriction-modification
                     system [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="EcoRI family type II restriction endonuclease"
                     /protein_id="WP_102016632.1"
                     /translation="MSNKNQSNRLTDQHKLSQGVIGIFGDYAKAHDLAVGEVSKLVKDA
                     LSKEYPQLSFRYRDSIRKTEINESLKKIDPDLGGTLFVSNSSIKPDGGIVEVKDDHDEW
                     RVVLVTEAKHQGKDIINIKNGVLVGKSSDQDLMAAGNAIERSHKNISEIANFMLSESHF
                     PYILFLEGSNFLTENILITRPDGRVVNLEYKSGMLNRLDRLTAANYGMPINSNLCVNKF
                     VKHKDKNIMLQAASIYTQGNGEKWDSKIMFEIMFDISTTSLRVLGRDLFDQLTSK"
                     /name="EcoRI family type II restriction endonuclease"
     gene            1623..2600
                     /locus_tag="HV105_RS31720"
                     /old_locus_tag="HV105_31715"
     CDS             1623..2600
                     /locus_tag="HV105_RS31720"
                     /old_locus_tag="HV105_31715"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002670781.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="adenine-specific methyltransferase EcoRI family
                     protein"
                     /protein_id="WP_102016631.1"
                     /translation="MARNATNKLLQKAKKLKSDEFYTQYCDIENELQYYKSQFSGKSVY
                     CNCDDPRVSNFFKYFSVNFHELGLEKLIASCYVERDVDIFSNGVVKNGFYYEYRGESKE
                     GCVLDDIKPSYFDGDGDFRSSESIELLKKSDVVVTNPPFSLFREYLEQLIKYEKKFLII
                     ANVNSITYKEVFKLIKDNKLWLGVHLGRGVSGFIVPEHYELYGTEARIDASGNRIISPN
                     NCLWLTNLDTFIRHEDIPLTKKYFGNEAEYPKYDNFDAINVNKTKDIPSDYKGVMGVPI
                     TFLHKFNPDQFELIKFRKGMDGKDLSINGKCPYFRILIKNKRLQ"
                     /name="adenine-specific methyltransferase EcoRI family
                     protein"
     gene            complement(2886..3035)
                     /locus_tag="HV105_RS32365"
     CDS             complement(2886..3035)
                     /locus_tag="HV105_RS32365"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001505258.1"
                     /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_102016630.1"
                     /translation="MHEPPVQSDCCASSGNYRLESNPERHDKAPLAAAIGRQNVREMYR
                     EFLK"
                     /name="replication initiation protein"
     gene            3665..4006
                     /locus_tag="HV105_RS31725"
                     /old_locus_tag="HV105_31720"
     CDS             3665..4006
                     /locus_tag="HV105_RS31725"
                     /old_locus_tag="HV105_31720"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006122514.1"
                     /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_071599364.1"
                     /translation="MADKRNKMLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPTR
                     AGRLPSISPALLRQLAGMGNNLNQIARKVNAGGAGHDRVQIVAALMAIDAGLERLRHAV
                     LEKGPDDDC"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            4215..>4643
                     /locus_tag="HV105_RS32230"
                     /pseudo=""
     CDS             4215..>4643
                     /locus_tag="HV105_RS32230"
                     /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          3398..3571
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.0"
                     /coverage="100.0"
                     /evalue="1.21e-74"
     Typing          complement(2877..3474)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.917"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          2..432
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.306"
                     /coverage="100.0"
                     /evalue="1.41e-79"
     Typing          3997..5087
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="84.615"
                     /coverage="93.0"
                     /evalue="0.0"
ORIGIN
        1 acggtttctg gtgctgccgg aggggatgaa agccgaaacg ggccggacgg tggacaacaa
       61 gacgcggaac gcggtgaagc tggtacggga gtagagcaga atgacggaac tggaaaaaca
      121 attgctgagc gcgttagagc agctacagca ggactactcg agaaggctgg acgagtggga
      181 gagcgccttc gaggaatggc ggaagatgtc tggtcttatg caacgggaga acgcggcgct
      241 gagcgagcgc gtgtcgggct tgagcaggca ggtgcagagt ttgagcgagc agctgcgccg
      301 gttatcgaca ggctgaatga gattgagcaa cagcgatacg ggcaaagaac ggaaaaggaa
      361 ccagagaaga cagcagatct ggtaccggaa cggcaacgca cattatctca tggtgacagg
      421 gagtatggag actgataaac gcccgtctca ggtggcctga gcgtgacggg gatcatggcc
      481 attttctgcg atttcagcac acagagagtc ttttttaacc gaaatcaccg gctatgcagt
      541 gatgtgaata agtgatgcat atgcgtaaaa taaatcaggt gcgtttctgg tggttttcgg
      601 tgtacttgcc accacctttt gcccgtcagc catcagaaac gccctgagtg cctccggcgc
      661 ggtgcgggta acagatgtta tggtaaatta attatatggt aacctatcga taatacgtaa
      721 atatataaaa taacagtgga aagattgata catgtctaac aagaaccagt caaatagatt
      781 aactgatcaa cataagttat ctcaaggtgt aattgggatt tttggggatt atgcaaaagc
      841 tcatgatctc gcggttggcg aagtttcaaa attagtaaag gatgctctta gcaaagaata
      901 tcctcaatta tcttttcgat atagagatag tataaggaaa acggaaataa atgaatcctt
      961 aaaaaaaatc gaccctgatc taggagggac tctttttgtt tcaaattcca gcatcaagcc
     1021 tgatggtgga attgtagagg ttaaagacga ccatgatgaa tggagagttg tgcttgttac
     1081 ggaagccaaa catcaaggta aagatataat aaatataaaa aatggtgtat tggttgggaa
     1141 atccagcgac caagatttaa tggctgctgg taatgctatc gaaaggtctc ataaaaacat
     1201 atcagaaata gcaaatttta tgctttctga gagtcacttt ccgtatatac tttttttaga
     1261 aggttctaac tttttaacgg aaaatatttt aataacaaga ccggatggaa gggttgttaa
     1321 tcttgaatat aagtctggca tgttaaatag gttagaccga ctgactgcag ctaattacgg
     1381 gatgcctata aatagtaatc tttgtgttaa caagtttgta aaacataaag ataaaaacat
     1441 tatgctacaa gcagcgtcta tatatactca agggaatgga gaaaaatggg attcaaaaat
     1501 tatgtttgaa ataatgtttg atatttctac aacttcgctc agagtgttgg gtcgagactt
     1561 gtttgatcag cttacatcta agtgatgtgt aataaagtat tgatatgtaa ggtatttttt
     1621 aaatggctag aaatgcaaca aacaaattac tgcaaaaagc taaaaagttg aaaagcgatg
     1681 aattttacac tcagtattgt gatattgaaa atgaacttca atactacaaa tcccaatttt
     1741 ctgggaaatc tgtttattgc aattgtgacg atcctagagt gagtaatttt tttaaatatt
     1801 tctcagtaaa ttttcatgag cttggcttgg aaaagttaat agcatcttgc tatgttgaaa
     1861 gagatgtgga tatttttagc aacggagtgg ttaagaacgg tttttattat gaataccgtg
     1921 gggaaagtaa ggaggggtgt gttttagatg atattaaacc atcttatttt gatggagatg
     1981 gtgattttcg cagttctgaa agtatagaac tgctaaaaaa atcagatgtt gttgttacga
     2041 atccgccgtt ctcgttgttt agagagtatc ttgaacaatt aattaagtat gagaagaagt
     2101 ttcttataat tgccaatgtt aattcaataa catataaaga agtgtttaaa ctcattaagg
     2161 acaataaact ttggcttgga gttcatctcg ggaggggggt ttccggattt atagttcctg
     2221 aacattatga attatatggg accgaggcaa ggattgatgc gagtggaaat agaattattt
     2281 caccaaataa ctgtctatgg ctgacaaact tggatacttt tatccgtcat gaagatatac
     2341 ctcttaccaa aaaatatttt ggtaatgaag ctgagtatcc taaatatgat aattttgatg
     2401 ctataaatgt aaataaaaca aaagacatcc catcagatta caagggggtt atgggagtgc
     2461 ctataacatt cctacataaa tttaatcctg atcagtttga attgataaaa tttagaaagg
     2521 gaatggacgg caaagattta tctattaatg ggaagtgccc atacttcagg attctaataa
     2581 aaaacaaaag gttacagtag tgattaatgt gggcttatgc ggtagagctt tatagtaaaa
     2641 gccgaattat ttattaaaag ctgcctttgg tctcattgta acaacgtgat gtgtagggtt
     2701 ttgttaggtt tttcttgaga tcattagctg gtcgtcgtaa tcttcagcac cagaaacgaa
     2761 aaaaccaccc tggcaggtgg tttttcgaag gttagataat cctggcagat tctctaaccg
     2821 tggtaacagt cttgtgcgag acatgtaacc aaattcgtcc ttccagtgta gcctcagtta
     2881 ggccactact tcaagaactc tcgatacatc tctcgcacat tctgtctacc aatggctgct
     2941 gccagtggcg ctttgtcgtg tctttccggg ttggactcaa gtcgatagtt accggaagag
     3001 gcgcagcagt cggactgaac ggggggttcg tgcatacagt ccagcttgga gcgaactgcc
     3061 tacccggaac tgagtgtcag gcgtggaatg agacaaacgc ggccataaca gcggaatgac
     3121 accggtaaac cgaaaggcag gaacaggaga gcgcacgagg gagctaccag ggggaaacgc
     3181 ctgggatctt tatagtcctg tcgggtttcg ccaccactga tttgagcgtc agatttcgtg
     3241 atgcttgtca ggggggcgga gcctatggaa aaacggcttt ggcgcggcct tatcgtttcc
     3301 ctgttaagtt ccttcctagc atctaccagg aaatttccgc cccgttcgta agcccgcacc
     3361 gctcgccgca gccgaacgac cgagcgtagc gagtcagtga gcgaggaagc ggaatatatc
     3421 ctgtatcgca tattccgctg acgcgccggt gccacctttt tcctccttcc acatgaagca
     3481 cttcactgat atccgcatcc gtgccaacat agtaagccag tatacactcc gctagcgcta
     3541 cgtgactggt tcagggctgc gccccgaaac ccgctaaaag ccactgacgc gcctgcggct
     3601 tgtccaaccc cgcgccgacc gggaaaggct ttcccgtccg tcacggcgtt atcaggaggc
     3661 gattctggca gataaacgca acaagatgct cacgatgtgg gtgacggaag acgaacaccg
     3721 gcggttgctt gagcggtgcg acggaaaaca actggcggcg tggatgcgcc agacctgcct
     3781 tgatgagaaa ccgacacgcg ccggcaggct tccctcgatt tcgcccgcgc tgctgcgtca
     3841 gcttgctggc atgggcaata acctgaacca gatcgcccgg aaagtgaacg ccggtggtgc
     3901 cggtcatgac cgggtgcaga tcgtggcagc gctgatggcg atcgatgccg gtctggaacg
     3961 gttgcggcat gccgtactgg aaaaagggcc ggacgatgat tgttaaattc catccccggg
     4021 gtcgcggcgg gggcgccggt cctgtggatt atcttctggg taaagaccgg cagcgtgaag
     4081 gtgccagcgt cctgcagggg aagccggaag aagtccggga gctgattgat gcgtcgccgt
     4141 atgtgaaaaa atatacctcg ggggtgctgt cattcgcgga ggcggacctg ccgccgggtc
     4201 agcgtgaaaa actgatggcc agctttgagc gggttctgat gcccggactc gataaagatc
     4261 agtacagcat tctgtgggtg gaacacgcag acaagggtcg tcttgagctg aattttctga
     4321 tccccaatac cgaattactg acggggaaac gcctccagcc gtattacgat cgtgccgacc
     4381 ggccgcgcat cgatgcgtgg cagacagtgg tcaacggcag gctggggcta catgatccga
     4441 acgacccgga gaaccggcgg gcgctggtca cgccgtcagg actgccagaa acgaagcagg
     4501 aagccgcaga gacgattaca cggggtttgc tgatgttagc ctcatcagga gagctgaaaa
     4561 cgcgtgatga cgtcacaggg gcgctcacag cggccggttt tgaggtggtc agaaccacaa
     4621 aaaacagtat cagcattgcc gacccggacg gggggcgaaa tatccgactg aggggagcca
     4681 tttatgagca gtcttttaac ggcctcgagg gacttcgagg agaaatcgaa agcacagcag
     4741 cagcttaccg aagagaggct gaaagccgca ttcagcaagc acgagaacgt tgtcaaatcg
     4801 gaactgaacg caagcgcgaa gagaatcaac gacgccatca gcgcccacga acaggggatg
     4861 aacgcggcga tgcagtcgaa ccggctgagc gtgctgcgaa tggtcgggcg gacgtggctg
     4921 accatcacca tggtgtcagg gctgctgttc gccagcctga gcggggtgct gtggtaccag
     4981 gggaaccgga tagcggcgaa cctggcggaa atcaggcagc agagagatac gctgtcgaaa
     5041 ctgcagatgc agacgtgggg cgtgacctat ctggagaacc gcaacgg
//
