LOCUS       NZ_CP082999             3559 bp    DNA     circular CON 10-FEB-2024
DEFINITION  Klebsiella pneumoniae strain 6911.28 plasmid p4-6911.28, complete
            sequence.
ACCESSION   NZ_CP082999
VERSION     NZ_CP082999.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN21016531
            Assembly: GCF_021137695.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3559)
  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  JOURNAL   Unpublished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 3559)
  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                   :: 187.6888x
            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 03:03:45
            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)                     :: 5,407
            CDSs (total)                      :: 5,288
            Genes (coding)                    :: 5,175
            CDSs (with protein)               :: 5,175
            Genes (RNA)                       :: 119
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 113
            CDSs (without protein)            :: 113
            Pseudo Genes (ambiguous residues) :: 0 of 113
            Pseudo Genes (frameshifted)       :: 46 of 113
            Pseudo Genes (incomplete)         :: 70 of 113
            Pseudo Genes (internal stop)      :: 13 of 113
            Pseudo Genes (multiple problems)  :: 14 of 113
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP082999.1.
            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..3559
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="6911.28"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p4-6911.28"
                     /geo_loc_name="Switzerland"
                     /lat_lon="46.947928 N 7.422277 E"
                     /collection_date="2018"
                     /collected_by="Institute for Infectious Diseases (IFIK),
                     University of Bern, Friedbuehlstrasse 51, 3001 Bern,
                     Switzerland"
     gene            complement(join(3051..3559,1..136))
                     /locus_tag="K9F31_RS26930"
                     /old_locus_tag="K9F31_26895"
     CDS             complement(join(3051..3559,1..136))
                     /locus_tag="K9F31_RS26930"
                     /old_locus_tag="K9F31_26895"
                     /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_044816498.1"
                     /translation="MKYINHCDSEDYYITNDSIDLGVRYDVSDYNKLELNDLRDPDLFK
                     VLGRAFVVVENSVWESWNDDVKTLDCSGDGYESILKHYESLELSGEFLLFFKKIRSAIS
                     VYNREYEFCTGDLEPSLQAIVQLIRYAPELAAKKDAQIYFDKKSECFGLIYKQTKKSKG
                     TLNLIVKTNNEIIFSFVRKVSGVVKVTGRAYIGDSLDNSIAIKSLFKMMEW"
                     /name="hypothetical protein"
     gene            complement(138..362)
                     /locus_tag="K9F31_RS26935"
                     /old_locus_tag="K9F31_26900"
     CDS             complement(138..362)
                     /locus_tag="K9F31_RS26935"
                     /old_locus_tag="K9F31_26900"
                     /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_071653266.1"
                     /translation="MSNKDSLERKVTPRKNEPVFPMALRVGIAEDICFLELVDFPEKES
                     GRVFYSIALTKKHAKNLIDGLNKFVESGD"
                     /name="hypothetical protein"
     gene            complement(1226..1648)
                     /locus_tag="K9F31_RS26940"
                     /old_locus_tag="K9F31_26905"
     CDS             complement(1226..1648)
                     /locus_tag="K9F31_RS26940"
                     /old_locus_tag="K9F31_26905"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005229777.1"
                     /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_044816494.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKNTKVVD
                     TSELIRVFGSLYGGGDTVKHDVKGDAGATGVNISGLHDLQHKIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKLEPSPQVHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(1648..1839)
                     /locus_tag="K9F31_RS26945"
                     /old_locus_tag="K9F31_26910"
     CDS             complement(1648..1839)
                     /locus_tag="K9F31_RS26945"
                     /old_locus_tag="K9F31_26910"
                     /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_044816495.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSGLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2255..2368
                     /locus_tag="K9F31_RS26950"
     CDS             2255..2368
                     /locus_tag="K9F31_RS26950"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /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_071653267.1"
                     /translation="MHEPPVQSDCCAFSGNYQLESNPERHDEAPLAAATGN"
                     /name="replication initiation protein"
     gene            complement(2575..3051)
                     /locus_tag="K9F31_RS26955"
                     /old_locus_tag="K9F31_26915"
     CDS             complement(2575..3051)
                     /locus_tag="K9F31_RS26955"
                     /old_locus_tag="K9F31_26915"
                     /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_077861907.1"
                     /translation="MTVLSTLNNLKSIPCINAFTGRANNSYLWRYVMEDHKDEFGATTI
                     KCFYLREEISEDYVSIYHSNKDYYEGMVRDVHKRIPVGKTKPAIYLSFDAAEVIEQVNK
                     PDKCIDIKDEGYPHLGLWYLFDINDEFTLIEVTTTILELSSFFQRNEGGVVVPL"
                     /name="hypothetical protein"
     Typing          1961..2368
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.39"
                     /coverage="99.0"
                     /evalue="1.26e-177"
ORIGIN
        1 ctttaaacaa atccggatct cttaaatcat ttagctctaa cttattataa tcagaaacat
       61 cataacgaac accgagatca atgctatcat tagtaatata ataatcttca ctatcgcagt
      121 ggttaatgta tttcatacta atcacctgac tcaacgaatt tattcaatcc atcgataagg
      181 ttctttgcat gttttttggt tagagctatg gaataaaaaa cccttcctga ttctttttca
      241 ggaaagtcca ctaactctaa aaaacaaata tcttcagcta tcccaactct tagagccatc
      301 gggaatacag gttcattttt tcttggtgtt acttttcttt ctaaagaatc tttattgctc
      361 attataatac cccgatagaa ataaatttaa gtttagaaca taaaaaataa taccataaaa
      421 caacatcttt catccacaat gctcatttaa cattacattg gtcactttat ggaattttgt
      481 ggccatgatt taacataaca ccaaaattgt acgcaccgct aaaacggcct cagggcgttt
      541 ctgacgggaa accggtaaaa taggcaacaa accacccgaa aacccgccag aaacgcgcag
      601 gctctgtttt tacggcatgc atgagtatgc acgcaagtgc atagcgcgaa aattcacgct
      661 attcagccag ggtaagtcct gtttccggcg ttcttcccat ccgaaaacgg tgaacgggga
      721 cgcaatttat tgcgtggccg tgaagcgttg ccggcgcagc cggaaaaccg gttttcagca
      781 cgttcaggaa tcgggttcgt cgacggccgg caatcacgtt atggcaagtc gccggacgac
      841 tcaccacacg attcaccggc gactcttcac tagagtcgta cccagagtcg tcacgtctaa
      901 aaaacaacca aacggggagt cgggtctaga gtcgggtcgt tgttaactta ttgtttttat
      961 agtcctgagt cgttaccgac tctatgacga ctcgccgggg actctatgac gagtcgtcat
     1021 agagtcggat ctgtataaat aaaattaaaa aaacgaaatt tatagaacgt aaactactga
     1081 tataaaatac aaatctgcaa aattttaatt ttgcgtgggg tgtggatatt tttagtggtg
     1141 aggagcgttc agcgatctgg cgatttttgg gaaggttcag gaactccccg gaatggccgg
     1201 agaggaaaac tgaagcatga cggggtcagg atttcttcca gaatttccac cacggagaat
     1261 gaacctgtgg agagggttcg agcttgtgtt ccagaagctg catagcctgg cgaagagaat
     1321 cgatatgttc atcacgagct ttaacagccc ctttaagacc atcgttttca gcttcaagca
     1381 aagcaatttt atgctgtaaa tcatgtaaac cagagatgtt aacccctgta gcgcctgcgt
     1441 caccttttac atcatgtttt acagtgtcgc ccccaccata aagcgagcca aaaaccctaa
     1501 taagctctga tgtatcaaca actttagtat ttttcccatg ctttacaaca gaggtgtaac
     1561 ttagtttccc actgttaatc atcttgtaaa ttgtggggcg actaacctta acaagccgag
     1621 ccgcttcact aatagacact ctggccatca gtttccatcc tgtaattcat ccagtcccga
     1681 agacagtgta cggaaaagat gctccgcatc atcgtggagt ttctcacaaa ggtcggcctc
     1741 tacatcaaga tcaagctcgt taagcttctc cagcaggagc agagactgat tctggatgaa
     1801 tttagccatg ttcagcgctg ttttctgttg tttcgtcata agaggcctca gagcgtcagt
     1861 gctcagtgta gggatgttct cttttccgct tcctcgctca ctcagtcgct acgctcctgc
     1921 cgttcggctg cggcgagcgg caggagcatg cgtataaaag ctcgagaaaa ccgagcgatc
     1981 gcgtgatggg gagaaggaga ggccgcacag cggccgtttt tccataggct ccgcccccct
     2041 gacaagcatc acgaaatctg acgctcaaat cagtggtggc gaaacccgac aggactataa
     2101 agataccagg cgtttccccc tggtggctcc ctcgtgcgct ctcctgttcc tgcctttcgg
     2161 tttaccggtg tcattccgct gttatggccg cgtttatctc attccacgcc tgacactcag
     2221 ttccgggtag gcagttcgct ccaagctgga ctgtatgcac gaaccccccg ttcagtccga
     2281 ctgctgcgcc ttttccggta actatcaact tgagtccaac ccggaaagac acgacgaagc
     2341 gccactggca gcagccactg gtaactgatt tagaggagtt agtcttgaag ttatgtgcca
     2401 gttaaggcta aactgaaaga acgattttgg ttactgcgct cctctaacta gccagttacc
     2461 ttggttcata gagccgcaaa ctcttagaac ctaagaaaaa ccgccccgca aaggcggttt
     2521 ttctttttca agaagagtac taggtcacac ttgatgacgt caagacggtt ttcgctaaag
     2581 aggaacaacc acgccacctt catttctttg aaaaaaagag gataattcca aaatagttgt
     2641 agtcacctca atcaaagtaa attcatcatt aatatcaaat aaataccaca aacccaagtg
     2701 agggtaacct tcgtccttta tatcaataca tttatctggt ttgttaactt gctcgatcac
     2761 ttccgctgca tcaaatgaga gatatatggc aggtttggtt ttccctacag ggattctttt
     2821 atgtacatcc cttaccattc cttcataata atctttattt gaatgataaa tagacacata
     2881 atcctctgaa atttcctccc taagataaaa acacttaata gttgtagcgc caaactcatc
     2941 tttatgatct tccataacat aacgccataa atatgaatta tttgctctgc ccgtaaatgc
     3001 attaatacaa gggattgatt tgaggttatt taaagttgat aacacagtca tcaccactcc
     3061 atcattttaa ataatgattt gatagcaatg gagttatcaa ggctatcgcc aatatatgcc
     3121 ctacctgtaa ccttaaccac tccagaaact tttctaacaa aggaaaaaat aatctcgtta
     3181 tttgttttca ctattaaatt tagcgtgcct ttgcttttct tagtttgttt atatataagc
     3241 ccaaaacact ctgatttttt atcaaagtaa atctgagcgt ctttttttgc agcaagttca
     3301 ggggcatacc taatcaactg aacaatagcc tgcaaagatg gttctaggtc accagtgcag
     3361 aactcgtatt ctctattata aacagaaatg gcacttctta tttttttaaa aaacaataag
     3421 aattcacctg ataattctaa tgattcgtaa tgttttaaaa ttgactcata accgtcacca
     3481 gagcaatcta atgttttaac atcatcattc caagactccc aaacagaatt ctcaacaaca
     3541 acaaatgctc gacccaaaa
//
