LOCUS       NZ_CP141552             6141 bp    DNA     circular CON 17-JAN-2024
DEFINITION  Klebsiella pneumoniae strain KP67_L13_49.22_ST437_NDM5_OXA232
            plasmid pKP67_OXA232, complete sequence.
ACCESSION   NZ_CP141552
VERSION     NZ_CP141552.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN38771715
            Assembly: GCF_035594725.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 6141)
  AUTHORS   Turton,J.F. and Turton,J.A.
  TITLE     Plasmid analysis using q20 nanopore sequencing
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6141)
  AUTHORS   Turton,J.F. and Turton,J.A.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-DEC-2023) HCAI, Fungal, AMR, AMU & Sepsis Division,
            United Kingdom Health Security Agency, 61 Colindale Avenue, London,
            London NW9 5EQ, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: FEB-2023
            Assembly Method :: flye v. 2.9.1-b1780; medaka v. 1.7.2
            Assembly Name                     :: rrp8_bc05
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 38x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/12/2024 12:04:02
            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)                     :: 5,362
            CDSs (total)                      :: 5,238
            Genes (coding)                    :: 5,063
            CDSs (with protein)               :: 5,063
            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)              :: 175
            CDSs (without protein)            :: 175
            Pseudo Genes (ambiguous residues) :: 0 of 175
            Pseudo Genes (frameshifted)       :: 117 of 175
            Pseudo Genes (incomplete)         :: 66 of 175
            Pseudo Genes (internal stop)      :: 16 of 175
            Pseudo Genes (multiple problems)  :: 23 of 175
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP141552.1.
            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="KP67_L13_49.22_ST437_NDM5_OXA232"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pKP67_OXA232"
                     /geo_loc_name="United Kingdom: England"
                     /collection_date="2022-12-02"
                     /genotype="ST437"
     gene            join(5369..6141,1..25)
                     /locus_tag="VI617_RS00645"
                     /old_locus_tag="VI617_00645"
     CDS             join(5369..6141,1..25)
                     /locus_tag="VI617_RS00645"
                     /old_locus_tag="VI617_00645"
                     /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(432..>584)
                     /locus_tag="VI617_RS00650"
                     /old_locus_tag="VI617_00650"
                     /pseudo=""
     CDS             complement(432..>584)
                     /locus_tag="VI617_RS00650"
                     /old_locus_tag="VI617_00650"
                     /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"
     gene            960..1907
                     /locus_tag="VI617_RS00655"
                     /old_locus_tag="VI617_00655"
     CDS             960..1907
                     /locus_tag="VI617_RS00655"
                     /old_locus_tag="VI617_00655"
                     /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            2315..2707
                     /locus_tag="VI617_RS00660"
                     /old_locus_tag="VI617_00660"
     CDS             2315..2707
                     /locus_tag="VI617_RS00660"
                     /old_locus_tag="VI617_00660"
                     /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            2689..3027
                     /locus_tag="VI617_RS00665"
                     /old_locus_tag="VI617_00665"
     CDS             2689..3027
                     /locus_tag="VI617_RS00665"
                     /old_locus_tag="VI617_00665"
                     /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            3008..4462
                     /locus_tag="VI617_RS00670"
                     /old_locus_tag="VI617_00670"
     CDS             3008..4462
                     /locus_tag="VI617_RS00670"
                     /old_locus_tag="VI617_00670"
                     /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_064996073.1"
                     /translation="MIIKFHNRGVGRGSGPVGYLLGRDGNREGATLDRGNPAVIEALID
                     SSPYAKKYTSGVLSFAEADLPRATKDKLMSDFEKALLPGLEGNQYAVLWVEHRDKGRLE
                     LNFVVPNIELQSGKRLQPYFHKADNPRLDAWRTVVNGELKLHDPDDPLNRQAVITPKDL
                     PRGHKEAAQAITDGLLRMAGAGEIQSRDDVRKALQGAGFSVVRETKNSLSIADPDGGRN
                     IRLKGVLYEQDFRHGEGLRAELEAAGQRYREASDRRIHEARESYLRGVEIKRGENERRY
                     CRAQPENGLAVAQNVDLDAGQHRPVLERNERDPLVSGGIDSGAASHSPSLGREGRQAKA
                     DPVREEIGAPLRADLRPQSNRLGEGYLLDRAEGVLNDGIGAGIALRVRGFAERIRAAAQ
                     GMAGKLRELGEHVREHQTRGRDQQGSSRAIDEAGERLNAASGRLEQAAGGLDRASQQVA
                     KEREHRLLKALDRGWERGDRSRGFER"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(4744..5025)
                     /locus_tag="VI617_RS00675"
                     /old_locus_tag="VI617_00675"
     CDS             complement(4744..5025)
                     /locus_tag="VI617_RS00675"
                     /old_locus_tag="VI617_00675"
                     /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"
     ARG             5370..6139
                     /name="blaOXA"
                     /gene="blaOXA"
                     /gene_name="OXA-48 family class D beta-lactamase"
                     /tool="amrfinderplus"
                     /drug_class="BETA-LACTAM"
                     /identity="100.0"
                     /coverage="96.98"
     ARG             5370..6139
                     /name="OXA-833"
                     /gene="OXA-833"
                     /gene_name="OXA beta-lactamase; OXA-48-like beta-lactamase"
                     /tool="rgi"
                     /drug_class="carbapenem; penam"
                     /identity="100.0"
                     /coverage="96.98"
     Typing          973..1894
                     /name="rep_cluster_1195"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="81.974"
                     /coverage="98.0"
                     /evalue="0.0"
     Typing          3009..4459
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.554"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 caaacaggag aaaattattc cctagaagtg gttagcgcgt atttgtgtga aatagccgtc
       61 atataagctg taaagatata tggacaaaat gctgatgctc gatgcgcttg tagttaatgg
      121 ctcatactta atcggtcagg cctaatcgac ttaagctccg cgcgttaact ttcagcctga
      181 gcattagcat cacattccta aacgtaaaaa gcctagccaa tttgctaggc ttttttgtta
      241 tctcaatggc catggtcact caacatgggg gtgtgaataa aggagtggcg atgtcagtaa
      301 aggtgaatgc cgctgcgata aagtgcctag cccatcaagg attgtaggct ttcttggctg
      361 ctaaagcgtt tgacgaaaaa gtccaagaag gcgctgatat tggttctcca tcattttcat
      421 ctaccggttt actataggtc aaccaggccg tccttgccgg cgcttgggac gcagacgatg
      481 gcatcaaatg cctcgctcaa attcgtttct acagaggcgc tttgggaccg cattcgcttt
      541 gctttcatgg gggcatctgt caatgtcaga catgaatcct ccgatatagg ttgatttttg
      601 atctcttcaa cacttggtgt tgtccgacta gagagactta tatggatcag tattcttgca
      661 ctgacaatgg tgccactcaa tcccaaggat cgacctagtt agaggcgtag atcaagcaat
      721 tcaaaacagc gcagaagcag aaggaggtgg aaatatgttc cagggtgaaa ggttacatgc
      781 aactaacgtt gctctctagg atgtgcctgc tgtaacgtat tgtccagaaa agacaaaccc
      841 ccgttatcgc ttgcatcttg gcggagctgc gaaaaacggg ggccgtgacg aatcacaaga
      901 gaagtctatc acatggatca tgccaaacaa ccccacgccg ccaataagcg cggtggtgct
      961 tgagaaagtg cgcacagctt gagctgtttc gggagcgcct gccccggaaa ccctactatt
     1021 ccgacgagct tacaacgggc ctacggattg cggatgttgc ccgcgccctt ggtgcgcgtt
     1081 acatccagcc gaacgggcca acgcaccgcc actggatcgt ttttgacgta gaccatgcag
     1141 ccgctacgtt atcttgggat gacgtaggcg ctccagcccc taacattacc gtcacgaaca
     1201 aggccaacgg ccacgcgcat ctgatctacg gactggatac gccgatccgc actgccccgg
     1261 atggaaatgc agcccctctg cggtatgccg ccgccatcga ggccgcgctc cgggagaaat
     1321 taggggcgga tatgggctac tccgggctga tctgcaagaa ccccctgcat gagcactggc
     1381 tggtgcaggt atgggaaccc cggctctacg atttagcctg gctatccgat tacctcgatc
     1441 tgagctccta caatggccgc aaatcgcttc ctgagtacgg gcttgggcga aactgtaccc
     1501 tgttcgagaa aacgcgcctg tgggcctata aagcgatccg gcagggctgg ccggattacc
     1561 ccgaatggtt ggccgcttgt gttgaccggg catcaggata taacgcccag ttcgagcagc
     1621 cgctccccgc aaacgaagtc cggcacacgg ccaagtccat tgccaaatgg acgcaccagc
     1681 acctaagccc cgcagggttc agagaggagc aggcccggag aggtgcgaag ggcggcaagg
     1741 tatccaaggg agggggaagg ccgagcaata gcggtaagga caagtccgat ctattgccgg
     1801 aggttctgcg gcttaaggct caggggtaca ccaaccgcga tatagcggac gatcttcaaa
     1861 tctcccccag tacggtgagc gtttacctaa agcgtgatcg tccgtgatcg aaacaagcct
     1921 tatcagataa tagccccctt taggggggtt cctgcgctct tgtcttttag ccttaaaaaa
     1981 tccttttagc gcggatcttt ggcgaggtgg acaactgcgc ctgtccgtcc atcgcccccc
     2041 tgttttttcg gggggtgtgg gcggcagcag ttatccacgg agccgctctt tcccttgatc
     2101 ttgctctagg gcttgcagta tcccgcccat ggttgaataa tgtactaagc aaggctacac
     2161 agaggcccct ctacctgctt cgcggtctcg ggcctctgtg gccttgttca ggggtgctac
     2221 gcccccccga aaccccctgt ggcccccgct cgatccgccc cttcgggacg gtctgcgcgg
     2281 tggcttcttg gctctggaga atggacgagg ccctatgtca acaacacaga tagagaaaga
     2341 ttcgagaagg aaggcagtca atggcgttat ttctagtttc caactagagg gggaggccat
     2401 aaccgatgaa ttcaaaattc tacttgaaga ttatatcaat ggaaaaattt ccaccgatga
     2461 ggtgttagct atggtaagtg acgaacccac aacaacggaa tacgactacg aaatcacccc
     2521 ccgcactctc ggtcttggcg ggggctggaa tctgcgtttg ctggagaacg gcgaagaggt
     2581 cggcgggggt gttttcccct tgccggagca ctgcgatttt cgggatgaaa aggcgctcca
     2641 gacgctactc gatagcctct atgaggacgc cttagcggag gcctctgcat ggctggccag
     2701 ccgttaaagc gcctccgctc tatcaagatc cgggtctcag atgcggagct tgagcgcctg
     2761 cgggagctct gccccaaggc ccaactggcg gagtggatgc gggagcaatg tctcggtgtt
     2821 gcgcaacccc agcgccgaac gccggcgcct accgtagatc cggcgctctt gcggcagttg
     2881 gccggaatgg gcaacaacct gaaccagatc gcccggcgcg ttaattccgg ggagtggggg
     2941 ccgttggatc ggctgcgcat catagcggag ctgtccgcta taggccgcga gctggaggaa
     3001 ctgcaccatg atcatcaaat tccataaccg tggggtaggc cggggctccg ggcctgttgg
     3061 ctacttgttg ggccgtgacg ggaaccggga aggcgcaacg ctcgaccggg gcaaccctgc
     3121 ggtgattgaa gccctgattg attccagtcc ctacgccaaa aaatacacct ctggcgttct
     3181 gtcgtttgcc gaggctgatt tacccagggc gaccaaggac aagctgatga gcgactttga
     3241 aaaggcgctc ctgcccggac tggagggcaa ccagtacgct gttttgtggg tagagcaccg
     3301 cgacaagggg cggctggagc tgaattttgt agtcccgaac atcgaattgc agagcgggaa
     3361 gcggctgcaa ccctacttcc acaaggccga caatccgcgc ctcgatgcgt ggcgaaccgt
     3421 ggtaaacggg gagctgaaat tgcacgaccc ggacgatccg ttaaaccgtc aggccgttat
     3481 cacgccaaag gatttgccga gggggcacaa ggaggccgct caggccatta cagacgggct
     3541 tttacgcatg gccggagcag gggagatcca gagccgcgat gatgtgcgca aagccttgca
     3601 gggtgcgggt ttcagcgtgg tacgcgaaac caaaaacagc ctgagcattg ccgacccgga
     3661 cggggggcgg aacatccgat taaagggggt gctgtatgag caagatttta gacatggcga
     3721 aggacttcga gcagagctcg aagcagcagg ccaacgctat cgagaagcgt ctgaccgaag
     3781 aattcacgag gcacgagaaa gctatctccg gggcgttgaa atcaagcgag gagaaaatga
     3841 gcgccgctat tgccgagcac agccagaaaa tgggctggct gttgctcaaa acgtggatct
     3901 ggatgctggt cagcatcgtc ctgttcttga gcgcaacgag cgggatcctc tggtatcagg
     3961 gggaattgat agcggagcgg caagccactc tccaagcctt ggcagagaag ggcggcaagc
     4021 taaagctgac ccagtgcggg aagaaattgg agcacctttg cgtgcagatc tccgacccca
     4081 atccaaccgt ttgggggaag gatacctatt ggatcgtgcc gaaggggtac taaatgacgg
     4141 gattggagcg ggaattgctc tgcgcgttcg aggctttgca gagcgcatac gagcagcagc
     4201 acaaggcatg gcaggaaagc tacgcgaact tggcgagcat gtacgagagc accaaacaag
     4261 aggccgagat cagcagggca gcagcagagc gattgacgag gcaggtgaac ggcttaacgc
     4321 agcaagtgga cggcttgagc aagcagctgg agggcttgac cgggctagtc agcaagttgc
     4381 aaaagaaagg gaacacaggc tcctgaaggc actggatcga ggctgggagc gtggagacag
     4441 atcgcgaggc tttgagcgtt gacggaacaa aacggccgtc agttataaaa aaaggaaagt
     4501 gctatcactt tccttttatc ggcgggaatt atcgttgagt tcttctatgc catttttcat
     4561 agtagtaact gtaatcttca tctctaccac cagattcaat ccagtcatca tactcagggc
     4621 tatttttgaa atctgaatca gacatgctaa ctccttgtta ttagttggct tctatggaag
     4681 ctagcgcacc gtgaagttat gatcaacgat gtagtccaca tcattgtcga aatgtgcgtt
     4741 cagctagtct tcggtgtttt ctgctttatt tctagcggcg attctcgcgt ctgcccatgc
     4801 ggcagacttt ttagcctgtt ctcgttgttc ttcggttgaa gactcgctgt tgagaacttt
     4861 gttgctcgtt tgtttgacca ccgaatccaa acctgttgtt gctgcaaaat gagctaggtt
     4921 aacaactccc ttacctaaca acttggcact agcgattgcg gtttctttag ccccaaaagc
     4981 atcagacacc tcctcaagcg ctttagatag gttaaaaaat cccatactcc ccctaagaat
     5041 atcatcaata aaattgagtg ttgctctgtg gataacttgc agagtttatt aagtatcatt
     5101 gcagcaaaga tgaaatcaat gatttatcaa aaatgattga aaggtggttg taaataatgt
     5161 tacaatgtgt gagaagcagt ctaaattctt cgtgaaatag tgatttttga agctaataaa
     5221 aaacacacgt ggaatttagg taatagttaa agcttgtgcc tgattgttgc cacaattggt
     5281 cagcagtttg ctagggaatg agagggcaga gaatgataag cttagcactt aatttgtatg
     5341 gatatattgc attaagcaag gggacgttat gcgtgtatta gccttatcgg ctgtgttttt
     5401 ggtggcatcg attatcggaa tgccagcggt agcaaaggaa tggcaagaaa acaaaagttg
     5461 gaatgctcac tttactgaac ataaatcaca gggcgtagtt gtgctctgga atgagaataa
     5521 gcagcaagga tttaccaata atcttaaacg ggcgaaccaa gcatttttac ccgcatctac
     5581 ctttaaaatt cccaatagct tgatcgccct cgatttgggc gtggttaagg atgaacacca
     5641 agtctttaag tgggatggac agacgcgtga tatcgccgct tggaatcgtg accatgactt
     5701 aattaccgcg atgaagtact cagttgtgcc tgtttatcaa gaatttgccc gccaaattgg
     5761 tgaggcacgt atgagtaaaa tgctgcacgc cttcgattat ggcaatgagg atatctcggg
     5821 caatgtagac agtttttggc tcgatggtgg tattcgcatt tcggctaccc agcaaatcgc
     5881 ttttttacgc aagctgtatc acaacaagct gcacgtttct gagcgtagtc agcgcatcgt
     5941 gaaacaagcc atgctgaccg aagccaatgg cgactatatt attcgggcta aaacgggata
     6001 ctcgactagt atcgaaccta agattggctg gtgggttggt tgggttgaac ttgatgataa
     6061 tgtgtggttt tttgcgatga atatggatat gcccacatcg gatggtttag ggctgcgcca
     6121 agccatcaca aaagaagtgc t
//
