LOCUS       NZ_CP083054             3827 bp    DNA     circular CON 10-FEB-2024
DEFINITION  Klebsiella pneumoniae strain 0213293972 plasmid p3-0213293972,
            complete sequence.
ACCESSION   NZ_CP083054
VERSION     NZ_CP083054.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN21016540
            Assembly: GCF_021137915.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3827)
  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  JOURNAL   Unpublished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 3827)
  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                   :: 342.8443x
            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 03:02:42
            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)                     :: 5,448
            CDSs (total)                      :: 5,323
            Genes (coding)                    :: 5,188
            CDSs (with protein)               :: 5,188
            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)              :: 135
            CDSs (without protein)            :: 135
            Pseudo Genes (ambiguous residues) :: 0 of 135
            Pseudo Genes (frameshifted)       :: 65 of 135
            Pseudo Genes (incomplete)         :: 76 of 135
            Pseudo Genes (internal stop)      :: 31 of 135
            Pseudo Genes (multiple problems)  :: 30 of 135
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP083054.1.
            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..3827
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="0213293972"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p3-0213293972"
                     /geo_loc_name="Switzerland"
                     /lat_lon="46.188053 N 6.143417 E"
                     /collection_date="2020"
                     /collected_by="Dianalabs, Rue de la Colline 6, 1205 Geneva,
                     Switzerland"
     gene            550..708
                     /locus_tag="K9F37_RS27165"
     CDS             550..708
                     /locus_tag="K9F37_RS27165"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001403044.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_053893437.1"
                     /translation="MHEPPVQPDCCACSGNYRLESNPERHDKTPLAAAIGIWFTEQRGA
                     YKHTQSS"
                     /name="hypothetical protein"
     gene            930..1847
                     /locus_tag="K9F37_RS27170"
                     /old_locus_tag="K9F37_27090"
     CDS             930..1847
                     /locus_tag="K9F37_RS27170"
                     /old_locus_tag="K9F37_27090"
                     /EC_number="2.1.1.-"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016243916.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0008170 - N-methyltransferase activity [Evidence IEA]"
                     /GO_process="GO:0009307 - DNA restriction-modification
                     system [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="site-specific DNA-methyltransferase"
                     /protein_id="WP_231545508.1"
                     /translation="MLKEIPLLDEIEHNSITNGDSIELIKKVQTQSAHLILSDIPYGIG
                     ADDWDVLHKNSNNAYLGSSPAQKSAGAIFKKRGKPINGWSDADRKIPLEYQKWCEEWAS
                     EWYRTLKPGASAIIFAGRRFSHRCICAMENAGFNLRDIIAWMRTKAPHRAQRLSCVYER
                     RGDKYNTEKWEGWRVGNLQPTFEPILWFSKPYKIGGTIADNVLLHGVGAYNQDAFVARN
                     GKPENVIHAGFASKESGLHPTQKPISLMKTLIELTTQEGQLVIDPFSGSGSTLVAAKEL
                     GRSYIGFELNPAYVEISKKRLKDK"
                     /name="site-specific DNA-methyltransferase"
     gene            complement(1848..2774)
                     /locus_tag="K9F37_RS27175"
                     /old_locus_tag="K9F37_27095"
     CDS             complement(1848..2774)
                     /locus_tag="K9F37_RS27175"
                     /old_locus_tag="K9F37_27095"
                     /EC_number="3.1.21.-"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000362418.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="HindIII family type II restriction endonuclease"
                     /protein_id="WP_053531176.1"
                     /translation="MELGDFKFINKDAVIRRRYWIDEIVKLSGHFVNDSSRVENEIIDE
                     VKKSGNQALLDHLRLCTAIPESYGHDSSEEKLYSKYTDALISECFKYLGLNSIVLTERA
                     DAADVEVVCDNYSFVADAKVFRLSRTAKNQKDFKVQAMDGWRNTKDFAMVVCPIYQLPT
                     KSSQIYQQAILRNVCIFTYTHLAVLIRYSSIATTEDSKKILSDIFKSVSLLNPSKDSVQ
                     YWVNINRTMLNYDDRIAALWADEKLATTEGIAVSKKMAIEFLSSERTRMLMMTKDEAVN
                     ALIKMHKIDSRIDQINKVTDNNILSLK"
                     /name="HindIII family type II restriction endonuclease"
     gene            complement(3659..3808)
                     /locus_tag="K9F37_RS27180"
                     /old_locus_tag="K9F37_27100"
     CDS             complement(3659..3808)
                     /locus_tag="K9F37_RS27180"
                     /old_locus_tag="K9F37_27100"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001442891.1"
                     /translation="MPSEYDEQLDSTDTQLPGEYDLFDLMAQVTEENLHAPVDFGPPVG
                     REAL"
                     /name="hypothetical protein"
     Typing          complement(17..189)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="86.517"
                     /coverage="100.0"
                     /evalue="9.74e-46"
     Typing          114..658
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.971"
                     /coverage="90.0"
                     /evalue="0.0"
ORIGIN
        1 gagaggttgt tagagggttt cggggcgcag ccctgaacca gtcacgtagc actagcggag
       61 tgtatatggg ctcaatatgc tacggtggag taacacttta tgaaagtgct tcatgtggca
      121 ggagaaaaag gcggcaccgg cgcgtcagca gaagatgcaa tacaggagat attccgcttc
      181 ctcgctcact gactcgctgc gctcggtcgt tcggctgcgg cgagcggtgc gggcttacga
      241 atagggcgga agtttcctgg caaatgccag gaaggaactt aacagggaaa tgagaaggcc
      301 gcggcgaagc cgtttttcca taggctccgc ccccctgaca agcatcacga aatctgacgc
      361 tcaaatcagt ggtggcgaaa cccgacagga cttaaagata ccaggcgttt ccccctggtg
      421 gctccctcgt gcgctctcct gttcctgcct ttcggtttac cggtgtcatt ccgctgttat
      481 ggccgcgttt atctcattcc acgcctgaca ctcgattccg ggaaggcagt tcgctccaag
      541 ctggactgta tgcacgaacc ccccgttcag cccgactgct gcgcctgttc cggtaactat
      601 cgacttgagt ccaacccgga aagacacgac aaaacgccac tggcagcagc cattggtatc
      661 tggtttacgg agcagagagg cgcgtacaag catacacaga gttcttgaag tgttgacctg
      721 actacggcta cactggaagg acagatttgg tcactgcgct ccgtttaagc cagttaccac
      781 ggttcagaag ttccccaact aactgaaccc tgaaaaaacc gcctccccag gcggtttttt
      841 cttttcaaaa ggctacgacg aaaggttatc ctgcgtcaag atactttgac agttataatg
      901 aagtgaaata atcgcgggta aggtgttgaa tgttaaaaga aattccattg cttgatgaga
      961 tagaacacaa ctccataaca aatggtgact caatcgagct aataaaaaaa gtacaaactc
     1021 aatccgcaca cttgatactg agtgacatcc cttacggaat aggtgctgat gattgggatg
     1081 tactacataa aaactcaaac aatgcctacc taggttcaag ccctgcacaa aaatcggctg
     1141 gagccatttt caaaaaaaga ggaaagccta taaatggctg gtcagatgca gatagaaaaa
     1201 tacctttaga gtatcagaaa tggtgtgaag agtgggcgag tgagtggtat cgaactttaa
     1261 aaccaggagc tagtgccatt atttttgctg gtagaagatt ttcacataga tgtatttgtg
     1321 caatggaaaa tgctggattt aacctcagag atataatcgc ctggatgaga acaaaagcac
     1381 ctcatcgcgc acaaaggcta agctgcgtat atgaaaggcg tggcgacaaa tataacacag
     1441 aaaaatggga aggctggaga gtgggtaact tacaaccaac atttgagcct atactatggt
     1501 tttcaaaacc ttataaaata ggaggtacca ttgctgataa cgttctattg catggcgtgg
     1561 gtgcatataa ccaagacgcg ttcgtagcga gaaatggaaa accggaaaat gtaatacatg
     1621 caggttttgc gagcaaggaa agcggattac acccaacgca gaaacctatt tctctgatga
     1681 aaaccctaat agaactaacc actcaagaag gtcagctagt aatagatcca tttagtggta
     1741 gcggttcaac tcttgttgcc gcaaaagagc tgggtagaag ctatataggc tttgaactta
     1801 acccagcata tgtagaaata agcaaaaaaa gattaaaaga caaataatta tttaagtgac
     1861 agtatgttat tatctgtcac tttatttatt tggtctatcc tgctatctat tttatgcatt
     1921 tttatcagcg cgttgacagc ctcatctttg gtcatcatta acattcttgt acgttcagaa
     1981 gataagaatt cgatagccat tttttttgaa acggcaatgc cctcagttgt ggctagcttt
     2041 tcatcagccc aaagggcagc tatcctgtca tcatagttta gcattgttct atttatatta
     2101 acccaatatt gaacactatc tttgctgggg ttaagtaaag atacagattt aaatatatca
     2161 ctaagaattt ttttgctatc ttcagttgtt gcaatacttg aatatcttat cagtacagcc
     2221 agatgtgtat atgtaaaaat acaaacattg cgcaatatgg cttgctgata tatttgactt
     2281 gatttagttg gcagctgata tattgggcag accaccattg caaagtcttt ggtatttctc
     2341 caaccatcca tagcttgaac tttaaaatcc ttttgatttt tggctgttct acttaaacga
     2401 aatacctttg catcggctac aaatgaatag ttatcgcaaa caacctcaac atcagctgca
     2461 tctgcccttt cggttaaaac aatgctattt aaccctaagt atttaaagca ctctgatatt
     2521 agtgcatctg tatactttga gtacagcttc tcttcacttg aatcatgacc atatgactca
     2581 ggtattgctg tgcataatct caggtgatct agcaacgctt gatttccgga cttcttaacc
     2641 tcatcgatta tttcattttc aactctactt gaatcgttaa caaaatgacc gcttagtttt
     2701 actatttcat caatccagta gcgtcttctt attactgcat ctttattaat gaatttgaaa
     2761 tcacctaatt ccatttttaa ttcccaatat tattgttcaa taactcaata taatttctcg
     2821 atcataacaa cttttttact tggataataa tacctccatc agttatgtgg ctagacattc
     2881 acttgattta ccataacatc cgttgcgtgc accgcctcag aggctctcag ggcgtttctg
     2941 acggaaaacc ggtaaacagg caacaaacca cccgaaaacc cgccagaaac gcgcaggctc
     3001 tgtttttacg gcatgcatga gtatgcgcgc aagtgcatag cgcagaattt cacgccgtgc
     3061 agccagtgga agtcctgttt tcgacgttct tctcatccga aaacggtgaa cggggacgca
     3121 atttattgcg tgaccgtgaa gcgttggcaa gagcatcaag catgaagaga agggggtcgg
     3181 atgtacgaat ggttcagaga actgttatga cgtaattcag tagtaattca gtagtaaatc
     3241 agtagtagat aagtagtcat cctcctccga tttgtagtaa atcagtagtg tttctgtagc
     3301 cccccccccc cctccggttt gtagtaaatc agtagtgacg ctgtagttta ttagtagtca
     3361 ggaggaataa gctgttcata caagtatgaa cgagctagtt atggacgctt tttttcacag
     3421 atctcctcag aataggcaaa gctcagcccg gtaaggagat gattctttat cccttaaatg
     3481 gccatacacc atacgcaacc gcgattttca tcgcaattgc atgaattaaa aggtaaaaac
     3541 tgaagccccc gtttatttat gtaatacgca acgtattaca accacctgta atcacatgaa
     3601 aataaagaaa taagatgtaa taccggcgta ttaccacgta cacgggtaag cgaaaaagct
     3661 ataacgcttc acggccgaca ggcggcccaa aatccaccgg ggcgtgcagg ttctcttcag
     3721 taacctgcgc cattaaatca aaaaggtcat attcaccggg aagctgcgta tcagtcgaat
     3781 ccagttgttc atcatattca gatggcatgg ggtgatatcc aatagct
//
