LOCUS       NZ_CP151195             5966 bp    DNA     circular CON 17-APR-2024
DEFINITION  Klebsiella variicola strain KVTMDU plasmid p8_KVTMDU, complete
            sequence.
ACCESSION   NZ_CP151195
VERSION     NZ_CP151195.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN23446385
            Assembly: GCF_038178705.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella variicola
  ORGANISM  Klebsiella variicola
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5966)
  AUTHORS   Ota,Y.
  TITLE     Emergence of KPC-2-producing Klebsiella variicola from hospital
            sewage
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5966)
  AUTHORS   Ota,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (26-NOV-2021) Molecular Microbiology, Tokyo Medical and
            Dental University, 1-5-45, Yushima, Bunkyo-ku 113-8510, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. July-2021
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 168.3x
            Sequencing Technology             :: Illumina MiSeq; Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_038178705.1-RS_2024_04_17
            Annotation Date                   :: 04/17/2024 11:53:20
            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)                     :: 6,118
            CDSs (total)                      :: 5,998
            Genes (coding)                    :: 5,805
            CDSs (with protein)               :: 5,805
            Genes (RNA)                       :: 120
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 193
            CDSs (without protein)            :: 193
            Pseudo Genes (ambiguous residues) :: 0 of 193
            Pseudo Genes (frameshifted)       :: 68 of 193
            Pseudo Genes (incomplete)         :: 125 of 193
            Pseudo Genes (internal stop)      :: 32 of 193
            Pseudo Genes (multiple problems)  :: 29 of 193
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP151195.1.
            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..5966
                     /organism="Klebsiella variicola"
                     /mol_type="genomic DNA"
                     /strain="KVTMDU"
                     /isolation_source="sewage"
                     /db_xref="taxon:244366"
                     /plasmid="p8_KVTMDU"
                     /geo_loc_name="Japan"
                     /lat_lon="35.7014 N 139.7642 E"
                     /collection_date="2021-06"
                     /collected_by="Tokyo Medical and Dental Hospital"
     gene            112..435
                     /locus_tag="LQ252_RS30405"
                     /old_locus_tag="LQ252_30410"
     CDS             112..435
                     /locus_tag="LQ252_RS30405"
                     /old_locus_tag="LQ252_30410"
                     /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_029593203.1"
                     /translation="MLTMWVTEDEHRRLLERCDGRQLAAWMRQTCLDEKPARTGKLPSL
                     SPALLRQLAGMGNNLNQIARRVNAGGGTGHDRVQIVAALMAIDAGLERLRHAVLEKGTD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            644..>1084
                     /locus_tag="LQ252_RS30410"
                     /old_locus_tag="LQ252_30415"
                     /pseudo=""
     CDS             644..>1084
                     /locus_tag="LQ252_RS30410"
                     /old_locus_tag="LQ252_30415"
                     /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            1113..1610
                     /locus_tag="LQ252_RS30415"
                     /old_locus_tag="LQ252_30420"
     CDS             1113..1610
                     /locus_tag="LQ252_RS30415"
                     /old_locus_tag="LQ252_30420"
                     /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_063930303.1"
                     /translation="MSNLFTASRDFEEKLKAQQQSTGEMLKAAFSEHEQSVGAELSASA
                     RRISDAISAHEQSMSEAMEKNRRSVLLTAGRTWLTILMVSALLIGTSGSILWWQGQQIT
                     DNYTTLRQQEDALAKMSAKTWGVSYQSDSNGRFLVLPKGAKAETGWTVDSGKRNAVKLV
                     QE"
                     /name="MbeB family mobilization protein"
     gene            1617..1832
                     /locus_tag="LQ252_RS30420"
                     /old_locus_tag="LQ252_30425"
     CDS             1617..1832
                     /locus_tag="LQ252_RS30420"
                     /old_locus_tag="LQ252_30425"
                     /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_000137422.1"
                     /translation="MTELEKQLLSALEQLQQDYSQRLDEWESAFAEWRSMCGLMQRENA
                     VLNERVSDLSTQVLSLSEQLRRLSGN"
                     /name="MbeD family mobilization/exclusion protein"
     gene            2370..2774
                     /locus_tag="LQ252_RS30425"
                     /old_locus_tag="LQ252_30430"
     CDS             2370..2774
                     /locus_tag="LQ252_RS30425"
                     /old_locus_tag="LQ252_30430"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016529521.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF2251 domain-containing protein"
                     /protein_id="WP_008321396.1"
                     /translation="MTILVTIQAQLVVGEEQVIKSLAPEGMLAAVFEDDGRTGYFYALD
                     ESVEGNPIMDAVHIYNAEDVSDGHIPSDVKIGWSEDSQKCVLLINGYPHGAFDFVGKNG
                     YCRSGYPPPINKVWSLSGHEWSDSVDDFFR"
                     /name="DUF2251 domain-containing protein"
     gene            complement(2848..3288)
                     /locus_tag="LQ252_RS30430"
                     /old_locus_tag="LQ252_30435"
     CDS             complement(2848..3288)
                     /locus_tag="LQ252_RS30430"
                     /old_locus_tag="LQ252_30435"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011161230.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_005119689.1"
                     /translation="MAWHTVQETLKLTGKSRSQLYRDMAKGLVSYRTGKNDRREFETSE
                     LIRAYGELRTSETPKRHKEGHSKSVVSQAENAQLDVIQQKLDALQQTVTLMLEDKMARE
                     AENRLRNEEREQLQAEISRLADALAQEKKRGFWSRLFRSGSE"
                     /name="hypothetical protein"
     gene            3506..4288
                     /locus_tag="LQ252_RS30435"
                     /old_locus_tag="LQ252_30440"
     CDS             3506..4288
                     /locus_tag="LQ252_RS30435"
                     /old_locus_tag="LQ252_30440"
                     /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_224753151.1"
                     /translation="MSTELNSGTVGGFGHMGPNDPYNDGHSGSGSSGGSFNGGGNGGHD
                     NSSGSSYTASFGLITGRHPITVPGTKNINSVDLSAVINNIIHHEGARNNMYLDTANNVT
                     VGIGRMLPNSQAGYNLGFTKTHHIPRGHGDSEDVEISASHGDIDSAFNATKEKRASNVH
                     LSDQSMVADCVNQLDKDRTTLRNMYTDFDHFPQPAKTALHDMLYNLGEGKLHSEFPNFN
                     AAVNRKDWTRAATESHRTGIGDSRNKDTHDQFIAAGNK"
                     /name="hypothetical protein"
     gene            complement(4315..4914)
                     /locus_tag="LQ252_RS30440"
                     /old_locus_tag="LQ252_30445"
     CDS             complement(4315..4914)
                     /locus_tag="LQ252_RS30440"
                     /old_locus_tag="LQ252_30445"
                     /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_049002646.1"
                     /translation="MKLINSFALSCFFFSISALAAQELVINNSALHIIFADGTEANVSS
                     CSDFISLNQAGMKIKELPDLSDPDYQQAHMELSKCLMHSWAIQNGYTQKTSSAITLDEV
                     VKHFPATADLSPASGYKTMLQTIPDLKPKDDRFVSHTKEEGYVINDAWTFKNSSGQEAD
                     FVMLVGYATGGTMAVARLWRIDSKTTTPWGVTEIKP"
                     /name="hypothetical protein"
     gene            complement(5271..5429)
                     /locus_tag="LQ252_RS30445"
                     /old_locus_tag="LQ252_30450"
     CDS             complement(5271..5429)
                     /locus_tag="LQ252_RS30445"
                     /old_locus_tag="LQ252_30450"
                     /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_032287700.1"
                     /translation="MHEPPVQSDRCALSGNYQLESNPERHDKTPLAAAISNRSAREDRL
                     RGLEVEA"
                     /name="hypothetical protein"
     Typing          5792..5965
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.857"
                     /coverage="100.0"
                     /evalue="5.54e-83"
     Typing          complement(5263..5868)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.593"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          113..429
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="94.34"
                     /coverage="99.0"
                     /evalue="7.47e-62"
     Typing          426..1924
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="84.283"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gccaaaagcc tgacgcgcct gcggcttgtc caaccccgcg ccgaccggga aagcctttcc
       61 cgtccgtccc ggcgttatca ggaggccggt ttgtcagaga aacggaacaa gatgctcacc
      121 atgtgggtga cggaggacga gcaccggcgg ctgctcgagc gctgcgacgg caggcagctg
      181 gcagcgtgga tgaggcagac ctgcctggac gaaaagcctg cgcgcaccgg aaagctcccc
      241 tcactctcgc cggcgctgct gcgccagctt gctggcatgg gcaacaacct gaaccagata
      301 gcccgccgcg ttaacgccgg cggcggtacc ggtcatgaca gggtgcagat tgtggcggcg
      361 ctgatggcca tcgatgccgg acttgagcgg ctgcggcacg ccgttcttga gaaaggaacg
      421 gacgatgatc gttaaatttc atcctcgggg tcgcggcggt ggcgccggtc cagtggacta
      481 tctgctgggt aaagaccggc agcgtgaagg cgccagcgtc ctgcagggga agccggaaga
      541 ggtccgggag ctgattgacg cgtcgcctta cgtgaagaaa tacacctccg gcgtcctgtc
      601 gtttgcggag gccgatctgc ctcccggcca gcgggaaaaa ctgatggcca gcttcgagcg
      661 ggttctgatg cccggactcg ataaagatca gtacagcatt ctgtgggtgg agcacgcgga
      721 caaggggcgt ctggagctga acttcctgat ccccaatacc gagctgctga ccggcagacg
      781 gctccagcca tactacgacc gagccgaccg gccgcgcatc gatgcctggc agaccatcgt
      841 gaacggcaga ctggggctgc acgacccgaa cgcgccggaa aaccgccggg cgctggtcac
      901 gccgtccggc ctgccgaaaa cgaagcagga ggccgcagaa gccattaccc gggggctgct
      961 gagcttagcc tcgtcagggg agctgaaaag ccgtcaggac gtcactgaca ctcttgaagg
     1021 tgcaggtttt gaggtggtgc gcaccacgaa aagcagtatc agcatcgccg acccggacgg
     1081 ggggcgaaac atccgactga agggagccat ctatgagcaa tctttttacg gcctcgaggg
     1141 acttcgagga gaaattgaaa gcgcagcagc agagtaccgg cgagatgctg aaggccgcat
     1201 tcagcgagca cgagcagtct gtcggagcgg aactgagcgc aagcgcgagg agaatcagcg
     1261 acgccatcag cgcccacgag cagagtatga gcgaggcgat ggagaaaaac cggcggagcg
     1321 tgctgctgac ggcagggagg acatggctta ccatcctgat ggtttcagcg ctgctgatcg
     1381 gcacgagcgg gagcattctg tggtggcagg ggcagcagat aaccgacaat tacacgaccc
     1441 ttcgccagca ggaggacgcc ctggcgaaga tgagcgcgaa aacatggggt gtgagctacc
     1501 agagcgacag caacggccgg ttcctggtgc tgccgaaggg agcgaaagcc gaaacaggct
     1561 ggacagtgga cagcgggaag cggaacgcgg tgaagctggt acaggagtag agcagaatga
     1621 cagagctgga aaagcagttg ctgagcgcat tagagcagct acagcaggac tactcgcaaa
     1681 ggctggacga atgggagagc gccttcgcgg aatggcggag catgtgtggg cttatgcaac
     1741 gggagaacgc ggtgctgaac gagcgcgtgt cggacttgag cacgcaggtg ctgagtttaa
     1801 gcgagcagct gcgccgcttg tccgggaact gaatgccatc gagctccggc agagggagaa
     1861 tgagtatcag aaaacactgg agctggagcg ccagccgcag aaaacctacc gcgggccgac
     1921 actttaaacc atccaggcag ctgacaaccc gcacgaagag gggctcttat ttctcccgct
     1981 aaataggttc gtgatcaaaa aggtcacgac ttattcagga gcgggaaatg aagctgttaa
     2041 atcttattga atcattgctt aactgcctgt atctggcggc ggagctgtgg gactgcctgg
     2101 agaagcattt gtcggttttt aaggcattgg cgcggatttt agtgtgactt taacatccat
     2161 gcatctggct gcatgactat gcaccagtgt aatattcagc ggctgcgttt ctggtgtttt
     2221 ttcgttatgt ctgtcgccac tttctcgcgt ctggcaccgg aaacgcagcc aaccccgttt
     2281 cagcggtgcg cccaacagat gttatggtaa attatccgct tgtctgaaag cgggctgccg
     2341 aagcaaccaa ggaaaggaga acagacctga tgaccatttt agtgacgata caggcccagc
     2401 tcgttgtcgg ggaggaacag gttataaaga gcctcgctcc tgagggcatg ctggccgccg
     2461 tgttcgaaga cgatggccgg accgggtatt tctatgcgct cgatgagtcc gtcgagggaa
     2521 acccgattat ggacgcagta cacatctaca atgccgaaga cgtttcagac ggtcacattc
     2581 cttctgatgt taaaattggc tggtcagaag acagtcagaa gtgcgtactc ctgatcaatg
     2641 gatacccgca cggggcattc gatttcgtgg gaaaaaacgg gtactgcagg agtggttatc
     2701 ctccccctat aaacaaggtg tggtctcttt ccgggcatga gtggagcgac tcggtggatg
     2761 attttttccg gtgaattacg gcaggctata gcctgccatt atggttcgaa caacggatgt
     2821 tatggtaaat cagagtcacc tgcactgtta ctctgaaccg gagcgaaaca gccgcgacca
     2881 gaatccccgc tttttttcct gtgccagcgc gtcagccaga cggctaattt cggcctgtag
     2941 ttgttccctc tcctcatttc gcaggcggtt ttctgcttcc cgcgccatct tgtcttcaag
     3001 cattagggta acagtctgct gcagagcgtc cagtttctgc tgaatgacgt ctagctgagc
     3061 attttccgcc tggctaacga cagatttgga gtgtccctcc ttgtgccttt ttggtgtctc
     3121 agaagtgcgc agctcgccat aggcccgaat cagttcactg gtctcgaact cccggcgatc
     3181 attttttcct gtgcgatagc tgacaaggcc tttagccatg tcacgatata attgcgagcg
     3241 cgactttcct gttaatttca gtgtctcttg aactgtgtgc catgccataa aagtgacagt
     3301 gtctcctgtg tgtaccgtat tgtaacagca gaacatatta ctgttttaac acaaaaggtc
     3361 tgaggctgcc cgtgaggcgt gaaaaataca caaaaaacct gttgacggtg tggttttgac
     3421 gggcgtagta tttcgaatac tgtatataaa cacattgtta taaatacagt ttttgctgtt
     3481 tttaaaagtc aaagaggata attttatgag tacagagtta aatagcggta ctgtcggtgg
     3541 ttttggtcac atgggaccaa atgaccccta caatgatggt catagcggct ctggaagttc
     3601 gggaggtagt tttaacggtg gtggtaatgg tggccatgat aatagtagtg gttcatctta
     3661 tactgcatcc tttggtctca tcactggccg acacccgata actgtcccag gtacgaagaa
     3721 tattaattct gtcgatcttt ctgctgtcat taataacatt atacatcatg aaggtgcacg
     3781 caataacatg tacctagata ctgcgaacaa tgtaacagtg gggattggtc gcatgctccc
     3841 gaattcgcaa gcaggctata atctgggatt tactaagaca caccatattc cgcgtggtca
     3901 tggagattca gaagatgtag aaataagcgc aagccatggt gatatagata gcgcgtttaa
     3961 cgcaaccaaa gagaaaaggg catccaatgt ccatctctca gatcagtcaa tggttgcgga
     4021 ttgcgtgaat caactggaca aggatcgtac caccctgcgc aacatgtata ctgacttcga
     4081 ccacttcccg caaccagcca agactgcatt gcatgatatg ctgtataatt tgggagaagg
     4141 gaaattgcac tctgaattcc ctaatttcaa tgcggcagta aatcgtaaag actggaccag
     4201 agctgcgact gaaagccatc gcactggcat cggtgattcc cgtaacaaag acacacacga
     4261 ccagtttatt gctgcaggta ataaataaga aaaagccgca taatgcggct ttttttatgg
     4321 ctttatttcg gtaacacccc agggggtggt ggtttttgaa tctattcgcc agagacgggc
     4381 aacagccatt gtacctccgg ttgcatagcc caccaacatc acgaaatctg cctcttggcc
     4441 ggatgagttc ttaaatgtcc aagcatcatt aatcacatac ccttcctctt tggtatgtga
     4501 cacaaagcgg tcatccttcg gttttaagtc cggtattgtt tgcagcatag ttttataacc
     4561 agaggctggg ctcaggtctg ctgtcgcagg gaagtgcttc actacctcat caagtgtgat
     4621 tgccgaactg gttttttggg tatatccgtt ctggatagcc caagaatgca ttaggcattt
     4681 gctgagctcc atatgcgcct gctggtaatc agggtctgac agatccggta gctccttaat
     4741 cttcatacct gcttgattta gagagataaa gtcactgcat gaggatacat tagcctctgt
     4801 gccgtcagca aagataatgt gtagggctga attgttaatt accagctctt gtgcggcgag
     4861 ggcgctaatt gaaaagaaga aacatgacag ggcgaatgag ttaattagtt tcatgatgat
     4921 gtatctgtag cattttggaa ataaatatat catctctcaa taagtagata tatttatctt
     4981 ttttgcttct ttggtgctgc aagtcaccaa tacgagggaa acctgttacg gagcggttta
     5041 accgtaatca acagtgactg gtgtcatgtt cggaagatta attgatagta atctacaaag
     5101 gatcttcttg agatcctttt caatgaatcg taatctcttg ctctgtaaac gaaaaaaccg
     5161 cctggggagg cggtttgttc gaaggttaag tcagttgggg aactgcttaa cccggtaaca
     5221 gggttcacga gaccgccatt accaaaactg ttctttcagt gtagccgcag tcaggcctct
     5281 acttcaagac ctcttaatct atcttctcgt gcactcctgt tactaatggc tgctgccagt
     5341 ggcgttttgt cgtgtctttc cgggttggac tcaagttgat agttaccgga caaggcgcag
     5401 cggtcggact gaacgggggg ttcgtgcata cagtccagct tggagcgaac tgccttcacg
     5461 gaactgagtg tcaggcgtgg aatgagaaac cgcggccata acagcggaat gacaccggta
     5521 aaccgaaagg caggaacagg agagcgcacg agggagctac cagggggaaa cgcctgggat
     5581 ctttatagtc ctgtcgggtt tcgccaccac tgatttgagc gtcagatttt gcgatgcttg
     5641 tcaggggggc ggagcctatg gaaaaacggc ttcgccgtgg ccttatctct tctttgctaa
     5701 gtgtcttcct ggtatcttcc aggaaatttc cgtccccgtc cgtaagccgg taccgctcgc
     5761 cgcagccgaa cgaccgagcg tagcgagtca gtgagcgagg aagcggaata tctcctgtat
     5821 cgcatattct gctgacgcgc cggtgctgcc ttttttctcc tgccacatga agcacttcac
     5881 tgattttcgc aatcgtggca acatagtaag ccagtataca ctccgctagc gctacgtgac
     5941 tggttcaggg ctgcgccccg aaaccc
//
