LOCUS       NZ_CP068892             6141 bp    DNA     circular CON 05-JAN-2024
DEFINITION  Klebsiella pneumoniae strain RIVM_C019590 plasmid pRIVM_C019590_4,
            complete sequence.
ACCESSION   NZ_CP068892
VERSION     NZ_CP068892.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17304715
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 6141)
  AUTHORS   Hendrickx,A.P.A., Landman,F., de Haan,A., Witteveen,S., van
            Santen-Verheuvel,M. and Schouls,L.M.
  TITLE     blaOXA-48-like genome architecture among carbapenemase-producing
            Escherichia coli and Klebsiella pneumoniae in the Netherlands
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6141)
  AUTHORS   Hendrickx,A.P.A., Landman,F., de Haan,A., Witteveen,S., van
            Santen-Verheuvel,M. and Schouls,L.M.
  TITLE     Direct Submission
  JOURNAL   Submitted (22-JAN-2021) Bacterial Surveillance and Response,
            National Institute for Public Health and the Environment, Antoni van
            Leeuwenhoeklaan 9, Bilthoven 3721 MA, Netherlands
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.4
            Genome Representation             :: Partial
            Expected Final Version            :: Yes
            Genome Coverage                   :: 30x
            Sequencing Technology             :: Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/05/2024 06:30:08
            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)                     :: 7
            CDSs (total)                      :: 7
            Genes (coding)                    :: 6
            CDSs (with protein)               :: 6
            Genes (RNA)                       :: 0
            tRNAs                             :: 0
            ncRNAs                            :: 0
            Pseudo Genes (total)              :: 1
            CDSs (without protein)            :: 1
            Pseudo Genes (ambiguous residues) :: 0 of 1
            Pseudo Genes (frameshifted)       :: 0 of 1
            Pseudo Genes (incomplete)         :: 1 of 1
            Pseudo Genes (internal stop)      :: 0 of 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP068892.1.
            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..6141
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="RIVM_C019590"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pRIVM_C019590_4"
                     /geo_loc_name="Netherlands"
                     /collection_date="2019"
     gene            1..948
                     /locus_tag="JL548_RS00005"
                     /old_locus_tag="JL548_00005"
     CDS             1..948
                     /locus_tag="JL548_RS00005"
                     /old_locus_tag="JL548_00005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_014293673.1"
                     /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_015060053.1"
                     /translation="MRKCAQLELFRERLPRKPYYSDELTTGLRIADVARALGARYIQPN
                     GPTHRHWIVFDVDHAAATLSWDDVGAPAPNITVTNKANGHAHLIYGLDTPIRTAPDGNA
                     APLRYAAAIEAALREKLGADMGYSGLICKNPLHEHWLVQVWEPRLYDLAWLSDYLDLSS
                     YNGRKSLPEYGLGRNCTLFEKTRLWAYKAIRQGWPDYPEWLAACVDRASGYNAQFEQPL
                     PANEVRHTAKSIAKWTHQHLSPAGFREEQARRGAKGGKVSKGGGRPSNSGKDKSDLLPE
                     VLRLKAQGYTNRDIADDLQISPSTVSVYLKRDRP"
                     /name="replication initiation protein"
     gene            1356..1748
                     /locus_tag="JL548_RS00010"
                     /old_locus_tag="JL548_00010"
     CDS             1356..1748
                     /locus_tag="JL548_RS00010"
                     /old_locus_tag="JL548_00010"
                     /inference="COORDINATES: protein motif:HMM:NF037437.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="antitoxin VbhA family protein"
                     /protein_id="WP_043907050.1"
                     /translation="MSTTQIEKDSRRKAVNGVISSFQLEGEAITDEFKILLEDYINGKI
                     STDEVLAMVSDEPTTTEYDYEITPRTLGLGGGWNLRLLENGEEVGGGVFPLPEHCDFRD
                     EKALQTLLDSLYEDALAEASAWLASR"
                     /name="antitoxin VbhA family protein"
     gene            1730..2068
                     /locus_tag="JL548_RS00015"
                     /old_locus_tag="JL548_00015"
     CDS             1730..2068
                     /locus_tag="JL548_RS00015"
                     /old_locus_tag="JL548_00015"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000502641.1"
                     /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_043907051.1"
                     /translation="MAGQPLKRLRSIKIRVSDAELERLRELCPKAQLAEWMREQCLGVA
                     QPQRRTPAPTVDPALLRQLAGMGNNLNQIARRVNSGEWGPLDRLRIIAELSAIGRELEE
                     LHHDHQIP"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2163..3503
                     /locus_tag="JL548_RS00050"
     CDS             2163..3503
                     /locus_tag="JL548_RS00050"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /protein_id="WP_228283704.1"
                     /translation="MIEALIDSSPYAKKYTSGVLSFAEADLPRATKDKLMSDFEKALLP
                     GLEGNQYAVLWVEHRDKGRLELNFVVPNIELQSGKRLQPYFHKADNPRLDAWRTVVNGE
                     LKLHDPDDPLNRQAVITPKDLPRGHKEAAQAITDGLLRMAGAGEIQSRDDVRKALQGAG
                     FSVVRETKNSLSIADPDGGRNIRLKGVLYEQDFRHGEGLRAELEAAGQRYREASDRRIH
                     EARESYLRGVEIKRGENERRYCRAQPENGLAVAQNVDLDAGQHRPVLERNERDPLVSGG
                     IDSGAASHSPSLGREGRQAKADPVREEIGAPLRADLRPQSNRLGEGYLLDRAEGVLNDG
                     IGAGIALRVRGFAERIRAAAQGMAGKLRELGEHVREHQTRGRDQQGSSRAIDEAGERLN
                     AASGRLEQAAGGLDRASQQVAKEREHRLLKALDRGWERGDRSRGFER"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(3785..4066)
                     /locus_tag="JL548_RS00035"
                     /old_locus_tag="JL548_00035"
     CDS             complement(3785..4066)
                     /locus_tag="JL548_RS00035"
                     /old_locus_tag="JL548_00035"
                     /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_043907053.1"
                     /translation="MGFFNLSKALEEVSDAFGAKETAIASAKLLGKGVVNLAHFAATTG
                     LDSVVKQTSNKVLNSESSTEEQREQAKKSAAWADARIAARNKAENTED"
                     /name="hypothetical protein"
     gene            4410..5207
                     /locus_tag="JL548_RS00040"
                     /old_locus_tag="JL548_00040"
     CDS             4410..5207
                     /locus_tag="JL548_RS00040"
                     /old_locus_tag="JL548_00040"
                     /EC_number="3.5.2.6"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011071128.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="OXA-48 family carbapenem-hydrolyzing class D
                     beta-lactamase OXA-232"
                     /protein_id="WP_043907054.1"
                     /translation="MRVLALSAVFLVASIIGMPAVAKEWQENKSWNAHFTEHKSQGVVV
                     LWNENKQQGFTNNLKRANQAFLPASTFKIPNSLIALDLGVVKDEHQVFKWDGQTRDIAA
                     WNRDHDLITAMKYSVVPVYQEFARQIGEARMSKMLHAFDYGNEDISGNVDSFWLDGGIR
                     ISATQQIAFLRKLYHNKLHVSERSQRIVKQAMLTEANGDYIIRAKTGYSTSIEPKIGWW
                     VGWVELDDNVWFFAMNMDMPTSDGLGLRQAITKEVLKQEKIIP"
                     /name="OXA-48 family carbapenem-hydrolyzing class D
                     beta-lactamase OXA-232"
     gene            complement(5614..>5766)
                     /locus_tag="JL548_RS00045"
                     /old_locus_tag="JL548_00045"
                     /pseudo=""
     CDS             complement(5614..>5766)
                     /locus_tag="JL548_RS00045"
                     /old_locus_tag="JL548_00045"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015059985.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="EreA family erythromycin esterase"
                     /name="EreA family erythromycin esterase"
     ARG             4411..5204
                     /name="blaOXA-232"
                     /gene="blaOXA-232"
                     /gene_name="OXA-48 family carbapenem-hydrolyzing class D
                     beta-lactamase OXA-232"
                     /tool="amrfinderplus"
                     /drug_class="BETA-LACTAM"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          14..935
                     /name="rep_cluster_1195"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="81.974"
                     /coverage="98.0"
                     /evalue="0.0"
     Typing          2050..3500
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.554"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttgagaaagt gcgcacagct tgagctgttt cgggagcgcc tgccccggaa accctactat
       61 tccgacgagc ttacaacggg cctacggatt gcggatgttg cccgcgccct tggtgcgcgt
      121 tacatccagc cgaacgggcc aacgcaccgc cactggatcg tttttgacgt agaccatgca
      181 gccgctacgt tatcttggga tgacgtaggc gctccagccc ctaacattac cgtcacgaac
      241 aaggccaacg gccacgcgca tctgatctac ggactggata cgccgatccg cactgccccg
      301 gatggaaatg cagcccctct gcggtatgcc gccgccatcg aggccgcgct ccgggagaaa
      361 ttaggggcgg atatgggcta ctccgggctg atctgcaaga accccctgca tgagcactgg
      421 ctggtgcagg tatgggaacc ccggctctac gatttagcct ggctatccga ttacctcgat
      481 ctgagctcct acaatggccg caaatcgctt cctgagtacg ggcttgggcg aaactgtacc
      541 ctgttcgaga aaacgcgcct gtgggcctat aaagcgatcc ggcagggctg gccggattac
      601 cccgaatggt tggccgcttg tgttgaccgg gcatcaggat ataacgccca gttcgagcag
      661 ccgctccccg caaacgaagt ccggcacacg gccaagtcca ttgccaaatg gacgcaccag
      721 cacctaagcc ccgcagggtt cagagaggag caggcccgga gaggtgcgaa gggcggcaag
      781 gtatccaagg gagggggaag gccgagcaat agcggtaagg acaagtccga tctattgccg
      841 gaggttctgc ggcttaaggc tcaggggtac accaaccgcg atatagcgga cgatcttcaa
      901 atctccccca gtacggtgag cgtttaccta aagcgtgatc gtccgtgatc gaaacaagcc
      961 ttatcagata atagccccct ttaggggggt tcctgcgctc ttgtctttta gccttaaaaa
     1021 atccttttag cgcggatctt tggcgaggtg gacaactgcg cctgtccgtc catcgccccc
     1081 ctgttttttc ggggggtgtg ggcggcagca gttatccacg gagccgctct ttcccttgat
     1141 cttgctctag ggcttgcagt atcccgccca tggttgaata atgtactaag caaggctaca
     1201 cagaggcccc tctacctgct tcgcggtctc gggcctctgt ggccttgttc aggggtgcta
     1261 cgcccccccg aaaccccctg tggcccccgc tcgatccgcc ccttcgggac ggtctgcgcg
     1321 gtggcttctt ggctctggag aatggacgag gccctatgtc aacaacacag atagagaaag
     1381 attcgagaag gaaggcagtc aatggcgtta tttctagttt ccaactagag ggggaggcca
     1441 taaccgatga attcaaaatt ctacttgaag attatatcaa tggaaaaatt tccaccgatg
     1501 aggtgttagc tatggtaagt gacgaaccca caacaacgga atacgactac gaaatcaccc
     1561 cccgcactct cggtcttggc gggggctgga atctgcgttt gctggagaac ggcgaagagg
     1621 tcggcggggg tgttttcccc ttgccggagc actgcgattt tcgggatgaa aaggcgctcc
     1681 agacgctact cgatagcctc tatgaggacg ccttagcgga ggcctctgca tggctggcca
     1741 gccgttaaag cgcctccgct ctatcaagat ccgggtctca gatgcggagc ttgagcgcct
     1801 gcgggagctc tgccccaagg cccaactggc ggagtggatg cgggagcaat gtctcggtgt
     1861 tgcgcaaccc cagcgccgaa cgccggcgcc taccgtagat ccggcgctct tgcggcagtt
     1921 ggccggaatg ggcaacaacc tgaaccagat cgcccggcgc gttaattccg gggagtgggg
     1981 gccgttggat cggctgcgca tcatagcgga gctgtccgct ataggccgcg agctggagga
     2041 actgcaccat gatcatcaaa ttccataacc gtggggtagg ccggggctcc gggcctgttg
     2101 gctacttgtt gggccgtgac gggaaccggg aaggcgcaac gctcgaccgg ggcaaccctg
     2161 cggtgattga agccctgatt gattccagtc cctacgccaa aaaatacacc tctggcgttc
     2221 tgtcgtttgc cgaggctgat ttacccaggg cgaccaagga caagctgatg agcgactttg
     2281 aaaaggcgct cctgcccgga ctggagggca accagtacgc tgttttgtgg gtagagcacc
     2341 gcgacaaggg gcggctggag ctgaattttg tagtcccgaa catcgaattg cagagcggga
     2401 agcggctgca accctacttc cacaaggccg acaatccgcg cctcgatgcg tggcgaaccg
     2461 tggtaaacgg ggagctgaaa ttgcacgacc cggacgatcc gttaaaccgt caggccgtta
     2521 tcacgccaaa ggatttgccg agggggcaca aggaggccgc tcaggccatt acagacgggc
     2581 ttttacgcat ggccggagca ggggagatcc agagccgcga tgatgtgcgc aaagccttgc
     2641 agggtgcggg tttcagcgtg gtacgcgaaa ccaaaaacag cctgagcatt gccgacccgg
     2701 acggggggcg gaacatccga ttaaaggggg tgctgtatga gcaagatttt agacatggcg
     2761 aaggacttcg agcagagctc gaagcagcag gccaacgcta tcgagaagcg tctgaccgaa
     2821 gaattcacga ggcacgagaa agctatctcc ggggcgttga aatcaagcga ggagaaaatg
     2881 agcgccgcta ttgccgagca cagccagaaa atgggctggc tgttgctcaa aacgtggatc
     2941 tggatgctgg tcagcatcgt cctgttcttg agcgcaacga gcgggatcct ctggtatcag
     3001 ggggaattga tagcggagcg gcaagccact ctccaagcct tggcagagaa gggcggcaag
     3061 ctaaagctga cccagtgcgg gaagaaattg gagcaccttt gcgtgcagat ctccgacccc
     3121 aatccaaccg tttgggggaa ggatacctat tggatcgtgc cgaaggggta ctaaatgacg
     3181 ggattggagc gggaattgct ctgcgcgttc gaggctttgc agagcgcata cgagcagcag
     3241 cacaaggcat ggcaggaaag ctacgcgaac ttggcgagca tgtacgagag caccaaacaa
     3301 gaggccgaga tcagcagggc agcagcagag cgattgacga ggcaggtgaa cggcttaacg
     3361 cagcaagtgg acggcttgag caagcagctg gagggcttga ccgggctagt cagcaagttg
     3421 caaaagaaag ggaacacagg ctcctgaagg cactggatcg aggctgggag cgtggagaca
     3481 gatcgcgagg ctttgagcgt tgacggaaca aaacggccgt cagttataaa aaaaggaaag
     3541 tgctatcact ttccttttat cggcgggaat tatcgttgag ttcttctatg ccatttttca
     3601 tagtagtaac tgtaatcttc atctctacca ccagattcaa tccagtcatc atactcaggg
     3661 ctatttttga aatctgaatc agacatgcta actccttgtt attagttggc ttctatggaa
     3721 gctagcgcac cgtgaagtta tgatcaacga tgtagtccac atcattgtcg aaatgtgcgt
     3781 tcagctagtc ttcggtgttt tctgctttat ttctagcggc gattctcgcg tctgcccatg
     3841 cggcagactt tttagcctgt tctcgttgtt cttcggttga agactcgctg ttgagaactt
     3901 tgttgctcgt ttgtttgacc accgaatcca aacctgttgt tgctgcaaaa tgagctaggt
     3961 taacaactcc cttacctaac aacttggcac tagcgattgc ggtttcttta gccccaaaag
     4021 catcagacac ctcctcaagc gctttagata ggttaaaaaa tcccatactc cccctaagaa
     4081 tatcatcaat aaaattgagt gttgctctgt ggataacttg cagagtttat taagtatcat
     4141 tgcagcaaag atgaaatcaa tgatttatca aaaatgattg aaaggtggtt gtaaataatg
     4201 ttacaatgtg tgagaagcag tctaaattct tcgtgaaata gtgatttttg aagctaataa
     4261 aaaacacacg tggaatttag gtaatagtta aagcttgtgc ctgattgttg ccacaattgg
     4321 tcagcagttt gctagggaat gagagggcag agaatgataa gcttagcact taatttgtat
     4381 ggatatattg cattaagcaa ggggacgtta tgcgtgtatt agccttatcg gctgtgtttt
     4441 tggtggcatc gattatcgga atgccagcgg tagcaaagga atggcaagaa aacaaaagtt
     4501 ggaatgctca ctttactgaa cataaatcac agggcgtagt tgtgctctgg aatgagaata
     4561 agcagcaagg atttaccaat aatcttaaac gggcgaacca agcattttta cccgcatcta
     4621 cctttaaaat tcccaatagc ttgatcgccc tcgatttggg cgtggttaag gatgaacacc
     4681 aagtctttaa gtgggatgga cagacgcgtg atatcgccgc ttggaatcgt gaccatgact
     4741 taattaccgc gatgaagtac tcagttgtgc ctgtttatca agaatttgcc cgccaaattg
     4801 gtgaggcacg tatgagtaaa atgctgcacg ccttcgatta tggcaatgag gatatctcgg
     4861 gcaatgtaga cagtttttgg ctcgatggtg gtattcgcat ttcggctacc cagcaaatcg
     4921 cttttttacg caagctgtat cacaacaagc tgcacgtttc tgagcgtagt cagcgcatcg
     4981 tgaaacaagc catgctgacc gaagccaatg gcgactatat tattcgggct aaaacgggat
     5041 actcgactag tatcgaacct aagattggct ggtgggttgg ttgggttgaa cttgatgata
     5101 atgtgtggtt ttttgcgatg aatatggata tgcccacatc ggatggttta gggctgcgcc
     5161 aagccatcac aaaagaagtg ctcaaacagg agaaaattat tccctagaag tggttagcgc
     5221 gtatttgtgt gaaatagccg tcatataagc tgtaaagata tatggacaaa atgctgatgc
     5281 tcgatgcgct tgtagttaat ggctcatact taatcggtca ggcctaatcg acttaagctc
     5341 cgcgcgttaa ctttcagcct gagcattagc atcacattcc taaacgtaaa aagcctagcc
     5401 aatttgctag gcttttttgt tatctcaatg gccatggtca ctcaacatgg gggtgtgaat
     5461 aaaggagtgg cgatgtcagt aaaggtgaat gccgctgcga taaagtgcct agcccatcaa
     5521 ggattgtagg ctttcttggc tgctaaagcg tttgacgaaa aagtccaaga aggcgctgat
     5581 attggttctc catcattttc atctaccggt ttactatagg tcaaccaggc cgtccttgcc
     5641 ggcgcttggg acgcagacga tggcatcaaa tgcctcgctc aaattcgttt ctacagaggc
     5701 gctttgggac cgcattcgct ttgctttcat gggggcatct gtcaatgtca gacatgaatc
     5761 ctccgatata ggttgatttt tgatctcttc aacacttggt gttgtccgac tagagagact
     5821 tatatggatc agtattcttg cactgacaat ggtgccactc aatcccaagg atcgacctag
     5881 ttagaggcgt agatcaagca attcaaaaca gcgcagaagc agaaggaggt ggaaatatgt
     5941 tccagggtga aaggttacat gcaactaacg ttgctctcta ggatgtgcct gctgtaacgt
     6001 attgtccaga aaagacaacc ccccgttatc gcttgcatct tggcggagct gcgaaaaacg
     6061 ggggccgtga cgaatcacaa gagaagtcta tcacatggat catgccaaac aaccccacgc
     6121 cgccaataag cgcggtggtg c
//
