LOCUS       NZ_CP061059             5499 bp    DNA     circular CON 10-JAN-2024
DEFINITION  Klebsiella pneumoniae strain HKP0067 plasmid pHKP0067.6, complete
            sequence.
ACCESSION   NZ_CP061059
VERSION     NZ_CP061059.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN15946737
            Assembly: GCF_014495765.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5499)
  AUTHORS   Xanthopoulou,K., Carattoli,A., Wille,J., Biehl,L., Rohde,H.,
            Farowski,F., Krut,O., Villa,L., Feudi,C., Seifert,H. and
            Higgins,P.G.
  TITLE     Antibiotic resistance and mobile genetic elements in extensively
            drug-resistant Klebsiella pneumoniae sequence type 147 recovered
            from Germany
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5499)
  AUTHORS   Xanthopoulou,K., Carattoli,A., Wille,J., Biehl,L., Rohde,H.,
            Farowski,F., Krut,O., Villa,L., Feudi,C., Seifert,H. and
            Higgins,P.G.
  TITLE     Direct Submission
  JOURNAL   Submitted (31-AUG-2020) Institute of Medical Microbiology,
            Immunology and Hygiene, University of Cologne, Goldenfelsstrasse
            19-21, Cologne 50935, Germany
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.9b
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 137x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/10/2024 01:25:55
            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)                     :: 5,607
            CDSs (total)                      :: 5,482
            Genes (coding)                    :: 5,359
            CDSs (with protein)               :: 5,359
            Genes (RNA)                       :: 125
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 123
            CDSs (without protein)            :: 123
            Pseudo Genes (ambiguous residues) :: 0 of 123
            Pseudo Genes (frameshifted)       :: 55 of 123
            Pseudo Genes (incomplete)         :: 64 of 123
            Pseudo Genes (internal stop)      :: 22 of 123
            Pseudo Genes (multiple problems)  :: 15 of 123
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP061059.1.
            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..5499
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="HKP0067"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pHKP0067.6"
                     /geo_loc_name="Germany"
                     /lat_lon="53.4608 N 9.9836 E"
                     /collection_date="2015-05-19"
                     /collected_by="university hospital in northern Germany"
     gene            complement(345..605)
                     /locus_tag="IBX31_RS27790"
     CDS             complement(345..605)
                     /locus_tag="IBX31_RS27790"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010891192.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein L"
                     /protein_id="WP_072016306.1"
                     /translation="MAAYTEKTEQFLQRVTHTQTWWTSTYDPSDTVPVSGIYRCTVCGK
                     EITSNKNDPFPPQNHHQHSQKQNVKWQLIVRTDTNGDKFGN"
                     /name="protein L"
     gene            1083..1418
                     /locus_tag="IBX31_RS27795"
     CDS             1083..1418
                     /locus_tag="IBX31_RS27795"
                     /inference="COORDINATES: protein motif:HMM:NF017757.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_077255464.1"
                     /translation="MSASEMKEICLDVTGVDKELKSLPIDKALAFLHNLKLVAAGIEPE
                     LKVEHLKVVAPGVIELKINGSPAYRCVYTIKSPGKVIVLRVFKKTTNGPARKDLEVVKQ
                     RLKNLKI"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            complement(1438..1749)
                     /locus_tag="IBX31_RS27800"
     CDS             complement(1438..1749)
                     /locus_tag="IBX31_RS27800"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017134632.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix transcriptional regulator"
                     /protein_id="WP_039817123.1"
                     /translation="MSNQNIFEILTSDPVSLNMWNLKSNLILAIHKTVRDNGWNQTEAA
                     AHLGISQPRVSNMLKGKLDKFSTDSLLEIMFKLGYKLDMQVHPSSEVILEMGMKKAML"
                     /name="helix-turn-helix transcriptional regulator"
     gene            complement(2107..2220)
                     /locus_tag="IBX31_RS28255"
     CDS             complement(2107..2220)
                     /locus_tag="IBX31_RS28255"
                     /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="replication initiation protein"
                     /protein_id="WP_072016307.1"
                     /translation="MHEPPVQSDCCALSGNYHLESNPVRHAKAPLAAAIGN"
                     /name="replication initiation protein"
     gene            2629..2820
                     /locus_tag="IBX31_RS27805"
     CDS             2629..2820
                     /locus_tag="IBX31_RS27805"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166328.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_000166328.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2820..3221
                     /locus_tag="IBX31_RS27810"
     CDS             2820..3221
                     /locus_tag="IBX31_RS27810"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="transcriptional regulator"
                     /protein_id="WP_039817125.1"
                     /translation="MARVSISEASRLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKSEHHSGQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="transcriptional regulator"
     gene            4260..5488
                     /locus_tag="IBX31_RS27815"
     CDS             join(4260..4575,4575..5488)
                     /locus_tag="IBX31_RS27815"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_086558215.1"
                     /ribosomal_slippage=""
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /note="programmed frameshift; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="IS3 family transposase"
                     /protein_id="WP_104457020.1"
                     /translation="MIDVLGPEKRRRRTTQEKIAIVQQSFEPGMTVSLVARQHGVAASQ
                     LFLWRKQYQEGSLTAVAAGEQVVPASELAAAMKQIKELQRLLGKKTMENELLKEAVEYG
                     RGKKVDSARALIARGWGVSFVSRCLRVSRAQLHVILRRTDDWKDGRRSRHTDDTDVLRR
                     IHHVIGELPTYGYRRVWALLRRQTELDGMPAINAKRVYRIMRQNALLLERKPAVPPSKR
                     AHTGRVAVKESNQRWCSDGFEFRCDNGEKLRVTFALDCCDREALHWAVTTGGFDSETVQ
                     DVMLGAVERRFGSELPASPVEWLTDNGSCYRANETRQFARMLGLEPKNTAVRSPESNGI
                     AESFVKTIKRDYISIMPKPDGLTAAKNLAEAFEHYNEWHPHSALGYRSPREYLRQRASN
                     GLSDNRCLEI"
                     /name="IS3 family transposase"
     Typing          complement(2108..2581)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.627"
                     /coverage="92.0"
                     /evalue="9.83e-170"
ORIGIN
        1 gaagattgtc gaagcaattg gtcctttatc atttcagtaa cggcatatgt gttgtaaaca
       61 gcgatagcta tttcagataa agacggatta gtagttagtg acttacatgt aggaataaaa
      121 aagcctggac gatcggataa ctgtttttct agaacgagat caacacgatg aaaagcatcg
      181 tcaataaagc tccgcacttg ctctggagac aggtcatgat aacgaatgac aaattcaaaa
      241 ggtggattag acataagacc tcagatcgtg gattgtttgg tacgagtgag taatgagact
      301 ttctggtaaa tcactgaggg aaagccccga agggcttccg tgtctcagtt accaaattta
      361 tcaccgtttg tgtctgtcct cacaattagc tgccatttaa cattttgttt ttgactatgt
      421 tgatgatggt tttgtggggg gaaaggatcg tttttattac tagttatctc tttaccgcat
      481 acggtacagc gataaatgcc tgatactgga actgtatcgc ttggatcgta tgttgatgtc
      541 caccaagtct gtgtgtgtgt aactcgctgt aagaactgct ctgttttttc cgtatatgca
      601 gccattcttt tacctttctt atcgtttatt ttcttggttt tcctgcgtct gagcgttttt
      661 tgcgcaccgt tccgtcattg tttctgtctc tgggctgggt tccgccacca ggctttggca
      721 ctaccacatc tttgtttagc ggtcttctat ctgccatctc ttaactcctt ctttcagttg
      781 tgatgcttta cggagacttt tagcttcgat ggaggattac tttcgtaaac agctgatagc
      841 ttatttattg agctaacggc atgcgcaagc gaagcggcat attgttagtt tatacaactt
      901 agagtatatt gatgcaatgg atattgccta aagcagtgtc ctgaaccact gaaattaaat
      961 gcctctacct ggtgaatctc atcaggcgta gaggtttggt tttttagtga ggttttttta
     1021 atcggagtat caaatgagaa atttaattgt tcgaccacta aaccccaaca aaggaggaca
     1081 ctatgtccgc aagcgaaatg aaagagattt gtctagacgt aactggtgtt gataaagagc
     1141 taaagtcttt acctattgat aaagctttag cttttttgca caacttgaag ttggttgccg
     1201 ctggaattga accagaactg aaagttgaac acctgaaagt agttgctcca ggcgtgattg
     1261 agttgaagat aaatggtagc cctgcttatc gttgtgtgta cacgataaaa tcacccggca
     1321 aggtgatcgt gttacgtgtc ttcaagaaaa cgactaacgg acctgcacgc aaagacttag
     1381 aagtcgtgaa gcaacggctg aaaaatctca aaatatagta tccactcaag gcgatgttca
     1441 cagcatcgcc tttttcatgc ccatctctaa aattacttca gaggatgggt gtacttgcat
     1501 gtctaatttg taacccagct tgaacatgat ttccagtagt gaatctgtag aaaacttgtc
     1561 cagcttccct ttcagcatgt tgctaaccct aggttggctt atgcctagat gtgcggccgc
     1621 ctctgtttgg ttccagccgt tatctcttac cgtcttatgt atggcgagga tcaggtttga
     1681 tttcaggttc cacatgttta gggataccgg atcactcgtt agtatttcga atatgttttg
     1741 attgctcata attttcatct cctatctgaa tgcgagcatt tagttgtcac aagacaatag
     1801 gaacgattat tagcttacac taaagtttgc ggattataca agttacagta tgcatgacaa
     1861 gatgtagatg gggttttatt tgtaaattta aagcattcta acaacacttg ttgactggat
     1921 cttggtcgtc agcgtagtct tcatttgttt taaaaagaaa aaccgcctgg ggaggcggtt
     1981 tttcaaggtt catcaaaccg gcaagtttat gaaccgaggt aactggctta gaggagcaca
     2041 gtcaccaaat ctgttttatc agtgtagccg tatagtacgt gtcttttcaa gacttcactc
     2101 ctctaatcag ttaccaatgg ctgctgccag tggcgctttt gcatgtctta ccgggttgga
     2161 ctcaagatga tagttaccgg ataaggcgca gcagtcggac tgaacggggg gttcgtgcat
     2221 acagtccagc ttggagcgaa ctgcctaccc ggaactgagt gtcaggcgtg gaatgagata
     2281 aacgcggcca taactgcgga atgacaccgg taaaccgaaa ggcaggaaca ggagagcgca
     2341 cgagggagcc atcaggggga aacgcctggt atctttagag tcctgtcggg tttcgccacc
     2401 actgatttga gcgtctgttt ttgtgatgct tatcaggggg gcggagccta tggaaaaacg
     2461 gcaacgccgc ggccttccgt tgtcctttcc gagctgtctg tcctatgccc ttatgtgtgc
     2521 gttgcgaccg ctcgccgcag ccgaacggta ggagcgtagc gactgagtga gcgaggaagc
     2581 ggaaaagaga ccggttttac attgagcact gacgctctga ggccctttat gacgaaacaa
     2641 cagaaaacgg cgctgaacat ggctaagttc atccagaatc agtccctgct cctgctggag
     2701 aagcttaacg agcttgatct cgatgctgag gctgaccttt gtgagaaact ccacgatgat
     2761 gcggagcatc ttttccgtac actgtcctcg agactggatg cattacagga tggtaactga
     2821 tggcccgagt gtctattagt gaggcttccc gactgacggg taagagtaga acaacactgc
     2881 acaggttaat taaagcaggt gacctgtcca cctgtagcgg tgaacgtaat gcaaaaatgg
     2941 tagatacttc agagctttta cgtgtctttg gtccctttga gcaaccgaag agtgaacacc
     3001 attctggaca ggtctctgaa cagcgtgata cagcctctgc tgaccagagt gaacaggtga
     3061 ttcgtcatct gaaacaggag attgaacacc tgaacacctt acttttgtcc aaggattcgc
     3121 acattgatag cctgaaacag gccatgctcc ttcttgaaaa tcaccaggca aaattaactg
     3181 aatccccggc gccatggtgg aaattctgga aaaaatcctg accccgtcat gcttcagttt
     3241 tcctctccgg ccatcccggg gagttcctga accttcccaa aaatcgccag atctctgaac
     3301 gctcctcacc actaaaaata tccacacccc acgcaaaatt aaaattttgc agatttgtat
     3361 tttatatcag cagcttacgt tctataaatt tcgttttttt aattttattt atacagatcc
     3421 gactctatga cgagtcgtca tagagtcccc ggcgagtcgt catagagtcg gtaacgactc
     3481 aggactataa aaacaataag ttaacaacga cccgactcta gacccgactc cccgtttggt
     3541 tgttttttag acgtgacgac tctgggtacg actctagtga agagtcgccg gtgaatcgtg
     3601 tggtgagtcg tccggcgact tgccataacg tgattgccgg ccgtcgacga acccgattcc
     3661 tgaacgtgct gaaaaccggt tttccggctg cgccggcaac gcttcacggc cacgcaataa
     3721 attgcgtccc cgttcaccgt tttcggatgg gaagaacgcc ggaaacagga cttaccctgg
     3781 ctgaatggcg tgaattttcg cgctatgcac ttgcgtgcat actcatgcat gccgtaaaaa
     3841 cagagcctgc gcgtttctgg cgggttttcg ggtggtttgt tgcctgtttt accggtttcc
     3901 cgtcagaaac gccctgaggc cgttttagcg gtgcgtacaa tcataccttt atgttaaatg
     3961 atagatgtaa aaagccccga ttggtctgat ggatttcctg ctgaggtgcg aagcggtcca
     4021 cctcccggcg acctgttcgg aaactccctc tgcgccagtc ttgtttggcc aaataagctg
     4081 ttatgagata agcacttgtg gtgtggtaga gaagatccta gctgacaaag atctctctta
     4141 tgtctttaat gagagtgata ttggaagata gactggcccc atgaatctcc agacaaccaa
     4201 tatcacttaa ataagtgata gtcttaatac tagtttttag actagtcatt ggagaacaga
     4261 tgattgatgt cttagggccg gagaaacgca gacggcgtac tacacaggaa aagatcgcta
     4321 tcgttcagca gagctttgaa ccgggaatga cggtctccct tgttgcccgg caacatggtg
     4381 tggcagccag ccagctattt ctctggcgta agcaatacca ggagggaagt cttactgctg
     4441 tggctgccgg agaacaggtc gttcctgcct ctgaacttgc tgccgccatg aagcagatta
     4501 aagaactcca gcgcctgctc ggcaaaaaaa cgatggaaaa tgaactcctt aaagaagccg
     4561 ttgaatatgg gcgagcaaaa aagtggatag cgcacgcgcc cttattgccc ggggatgggg
     4621 agtaagcttc gtcagccgtt gtctccgggt gtcgcgtgcg cagttgcacg tcattctcag
     4681 acgaaccgat gactggaagg acggccgccg cagccgtcac acggatgata cggatgtgct
     4741 tcgccgtata caccatgtta tcggagagct gcccacatat ggttatcgtc gggtatgggc
     4801 gctgcttcgc agacagacgg aacttgatgg tatgcctgcg atcaatgcca aacgtgttta
     4861 ccggatcatg cgccagaatg cgctgttgct tgagcgaaaa cccgctgtac cgccatcgaa
     4921 acgggcacat accggcagag tggctgtgaa agaaagtaat cagcgatggt gctctgacgg
     4981 gtttgagttc cgctgtgata acggagaaaa actgcgggtc acgttcgcgc tggactgctg
     5041 tgaccgtgag gcactgcact gggcggtcac aacggggggc ttcgacagtg aaacagtaca
     5101 ggacgtcatg ctgggagcag tggaacgccg ctttggcagc gagcttccgg cgtctccagt
     5161 ggagtggctg acggataatg gttcatgcta ccgggcgaat gaaacacgtc agttcgccag
     5221 gatgttggga cttgaaccga agaacacggc agtgcggagt ccggagagta acggaatagc
     5281 agagagcttc gtgaaaacga taaagcgtga ctacataagt atcatgccca aaccagacgg
     5341 gttaacggca gcaaagaacc ttgcagaggc gttcgagcat tataacgaat ggcatccgca
     5401 tagtgcgctg ggttatcgct cgccacggga atatctgcgg cagcgggcca gtaatgggtt
     5461 aagtgataac aggtgtctgg aaatataggg gcaaatcca
//
