LOCUS       NZ_CP083031             3503 bp    DNA     circular CON 10-FEB-2024
DEFINITION  Klebsiella pneumoniae strain 6604.68 plasmid p5-6604.68, complete
            sequence.
ACCESSION   NZ_CP083031
VERSION     NZ_CP083031.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN21016524
            Assembly: GCF_021137815.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3503)
  AUTHORS   Campos-Madueno,E.I. and Endimiani,A.
  TITLE     A collection of hybrid assemblies of carbapenemase-producing
            Klebsiella pneumoniae clinical isolates from Switzerland
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3503)
  AUTHORS   Campos-Madueno,E.I. and Endimiani,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (02-SEP-2021) Institute for Infectious Diseases,
            University of Bern, Friedbuehlstrasse 51, Bern 3001, Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 204.287x
            Sequencing Technology :: Illumina NovaSeq and Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/10/2024 03:11:59
            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)                     :: 5,509
            CDSs (total)                      :: 5,388
            Genes (coding)                    :: 5,236
            CDSs (with protein)               :: 5,236
            Genes (RNA)                       :: 121
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 152
            CDSs (without protein)            :: 152
            Pseudo Genes (ambiguous residues) :: 0 of 152
            Pseudo Genes (frameshifted)       :: 52 of 152
            Pseudo Genes (incomplete)         :: 91 of 152
            Pseudo Genes (internal stop)      :: 29 of 152
            Pseudo Genes (multiple problems)  :: 16 of 152
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP083031.1.
            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..3503
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="6604.68"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p5-6604.68"
                     /geo_loc_name="Switzerland"
                     /lat_lon="46.947928 N 7.422277 E"
                     /collection_date="2017"
                     /collected_by="Institute for Infectious Diseases (IFIK),
                     University of Bern, Friedbuehlstrasse 51, 3001 Bern,
                     Switzerland"
     gene            join(3491..3503,1..389)
                     /locus_tag="K9F26_RS27450"
                     /old_locus_tag="K9F26_27405"
     CDS             join(3491..3503,1..389)
                     /locus_tag="K9F26_RS27450"
                     /old_locus_tag="K9F26_27405"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /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 domain-containing protein"
                     /protein_id="WP_009310048.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(1199..1636)
                     /locus_tag="K9F26_RS27455"
                     /old_locus_tag="K9F26_27410"
     CDS             complement(1199..1636)
                     /locus_tag="K9F26_RS27455"
                     /old_locus_tag="K9F26_27410"
                     /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_032419556.1"
                     /translation="MTTKNEEFQERLKASLKKANETLILKEKIESDISSILSMLKGITS
                     DSIDFDIFQNSSKIPKYKDCKKIVRIKKNSSMAYPKGFILFGFSINESTGYPVQVETED
                     EAAECTDVDNLKESIVYIIEKRSIEIMKLISEQQEDDDIPF"
                     /name="hypothetical protein"
     gene            complement(1620..2513)
                     /locus_tag="K9F26_RS27460"
                     /old_locus_tag="K9F26_27415"
     CDS             complement(1620..2513)
                     /locus_tag="K9F26_RS27460"
                     /old_locus_tag="K9F26_27415"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000422436.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="endonuclease"
                     /protein_id="WP_032419557.1"
                     /translation="MELNLCWWNIGISPPVKGVKKDKAEAIRLAKHYIKKMSQEKTLDF
                     LGICEISEDEAIDFKPLADKLHLEYLNLSGTVGRIIMDVSIMYEASKLEYIDYKYIIKI
                     QPDDRTLRIAVRVVFKDAVTGNLITFFLSHWPSIRSADEKIREDAAESLRNNVNKILDD
                     HGIESQIICMGDYNTNPYSVAINEKLYATRDYHRIKNKRKLLFNPFWYLLSDKKTNNLG
                     TYHYKSGASNRWFVFDQMLFSSSFIYGGKDCLKLDMNSLDFHRILSDDNQCLDQRFFNT
                     FDHYPIFCRIYHDNQK"
                     /name="endonuclease"
     gene            complement(2811..2927)
                     /locus_tag="K9F26_RS27465"
     CDS             complement(2811..2927)
                     /locus_tag="K9F26_RS27465"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001318243.1"
                     /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_231543466.1"
                     /translation="MYARTPVQSDCCALSGNYHLESNPKRHDKAPLAAATGN"
                     /name="replication initiation protein"
     gene            3300..3491
                     /locus_tag="K9F26_RS27470"
                     /old_locus_tag="K9F26_27420"
     CDS             3300..3491
                     /locus_tag="K9F26_RS27470"
                     /old_locus_tag="K9F26_27420"
                     /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_004187666.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(2812..2981)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.954"
                     /coverage="85.0"
                     /evalue="6.77e-72"
     Typing          complement(2982..3179)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.089"
                     /coverage="91.0"
                     /evalue="8.83e-70"
ORIGIN
        1 ctattagtga ggctgcccga ctgacgggta agagtagaac aacactgcac aggttaatta
       61 aagcaggtga cctgtccacc tgtagcggtg aacgaaatgc aaaaatggta gatacttcag
      121 agcttttacg tgtctttggt ccctttgaac aaccgaaggg tgaacaccat tctggacagg
      181 tctctgaaca gcgtgataca gcctctgctg accagagtga acaggtgatt cgtcatctga
      241 aacaggagat tgaacacctg aataccttac ttttgtccaa ggattcgcac attgacagcc
      301 tgaaacaggc catgctcctt cttgaaaatc accaggcaaa attaacggaa tccccggcac
      361 catggtggaa attctggaaa aaatcctgat cctgccatgc ttgagttttc ctctccggcc
      421 atcccgggga gttcctgaac cttcccaaaa atcgccagat ctctgaacgc tcctcacgac
      481 taaaaatacc cacacactac gcaaaattaa aattttgcag atttgtattt aatatcagtt
      541 gtttactttc ctgaaatttc gttttttaaa ttttatttac atagatccga ctctatgacg
      601 actcgtcata gagtccccgg cgagtcgtca tagagtcggt aacgactcag gactataaaa
      661 acaatgagtt aataacgacc cgactctgga cacgactccc cgtttggttg ttttttagac
      721 gcggcgactc tgggtacgac tctagtgaag agtcgccggt gaatcgtgtg gtgagtcgtc
      781 cggcgacttg ccataacgtg attgccggcc gtcgacgaac ccgattcctg aacgtgctga
      841 aaaccggttt tccggctgcg ccggcaacgc ttcacggcca cgcaataaat tgcgtccccg
      901 ttcaccgttt tcggatggga agaacgccgg aaacaggact taccctggct gaatggcgtg
      961 aattttcgcg ctatgcactt gcgtgcatac tcatgcatgc cgtaaaaaca gagcctgcgc
     1021 gtttctggcg ggttttcggg tggtttgttg cctgttttac cggtttcccg tcagaaacgc
     1081 cctgaggccg ttttagcggt gcgtacaatt atggtcttat gttaaattag ttgattctaa
     1141 gatatatggc accttctatg aaaaagtgcc gttgataatg gcattacatg ctaccttttt
     1201 aaaaaggaat gtcatcgtct tcttgttgct cggatattaa tttcattatc tctatagatc
     1261 ttttttctat tatgtaaaca attgattctt ttaagttatc cacatctgta cactctgcgg
     1321 cttcgtcttc cgtttctacc tgtacaggat atccggtaga ctcatttatg ctaaatccaa
     1381 ataaaatgaa acctttaggg tatgccatgc tagagttttt ctttattctg acaatttttt
     1441 tacaatcttt atatttggga attttcgaac tattctgaaa aatatcaaag tcaattgagt
     1501 cggatgttat accctttagc attgacaaaa ttgatgaaat atctgactct attttttctt
     1561 ttaaaattag tgtttcattg gcttttttta gtgatgcctt tagtctttct tggaactctt
     1621 catttttggt tgtcatggta aatcctacaa aatattgggt aatgatcaaa agtgttaaaa
     1681 aatctttgat ctaaacattg gttatcatca ctaagtatac gatgaaaatc aaggctgttc
     1741 atgtctagct taagacaatc ttttcctccg tatataaatg atgatgaaaa caacatttga
     1801 tcaaaaacaa accatctatt cgatgctcct gatttataat gataagttcc taagttattg
     1861 gtctttttgt ctgaaagtaa ataccaaaaa gggttaaaaa gaagttttcg tttattcttt
     1921 attcgatggt aatctctagt ggcgtaaagt ttttcgttta ttgcaacaga gtaagggttt
     1981 gtgttgtaat cacccatgca tattatttgg gactcaatgc cgtggtcatc tagtatttta
     2041 ttcacattgt tgcgcagtga ctcggcagcg tcctctcgaa tcttttcatc tgcgcttctt
     2101 atggatggcc agtgtgataa aaagaatgtt attagatttc ctgttactgc atccttaaaa
     2161 acaactctga cagcaatacg caaagttcta tcatctggtt gtattttaat tatatattta
     2221 taatctatgt actcaagttt tgatgcttcg tacattatgg atacatccat aattatccga
     2281 ccaacagtcc ctgataaatt caagtattca agatgtagtt tatcagccaa aggtttaaaa
     2341 tctatagcct catcttctga tatttcacag atacccaaaa aatccaatgt tttttcttga
     2401 gacatttttt ttatatagtg cttggccaat ctaatagcct cagccttgtc tttcttcacg
     2461 ccttttacag gtggtgatat tccaatattc caccaacata aattcaattc catggtgttt
     2521 ctttcttaat gcattgtatt cattgggttt attgtattgc ttttgatgtg ggggttaaac
     2581 attttattta tctgtttgtt gataaatggt gttgcgctac cccttttaag gcgttatctt
     2641 cttggctgga aatgaaaaaa ccgccttgca gggcggtttt ttcaagggtt caaataactt
     2701 gcaggtcttt tgaacctagg taactggcta gtagaggagc gcagtcacca aaacttgttc
     2761 tttcagtgta gccttaactg acccataact tcaagactaa ctcctctaaa tcagttacca
     2821 gtggctgctg ccagtggcgc tttgtcgtgt cttttcgggt tggactcaag atgatagtta
     2881 ccggataagg cgcagcagtc ggactgaacg ggggttcgtg catacagtcc agcttggagc
     2941 gaactgccta cccggaactg agtgtcaggc gtggaatgag accgaatggc aggaacagga
     3001 gagcgcacga gggagccatc aggggaaacg cccggtatct ttatagtcct gtcgggtttc
     3061 gccaccactg atttgagcgt ccgcttcggt gatgcttgtc aggggggcgg agcctatgga
     3121 aaaacggccg ctttgcggcc tttccttctt ccccatttga ccgctcggtc ttctcgagct
     3181 tttatacgca tgctcctgcc gctcgccgca gccgaacgac cggagcgtag cgactgagtg
     3241 agcgaggaag cggaaaagag actgttctta cactgagcac tgacgctctg aggcttctta
     3301 tgacgaaaca acagaaaaca gcgctgaaca tggctaaatt catccagaat cagtctctgc
     3361 tcctgctgga gaagcttaac gagcttgatc ttgatgtcga ggccgacctt tgtgagaaac
     3421 tccacgatga tgcggagcat cttttccgta cactgtcctc gagactggat gcattacagg
     3481 atggtaactg atggccagag tgt
//
