LOCUS       NZ_CP083061             4863 bp    DNA     circular CON 10-FEB-2024
DEFINITION  Klebsiella pneumoniae strain 1613258639 plasmid p6-1613258639,
            complete sequence.
ACCESSION   NZ_CP083061
VERSION     NZ_CP083061.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN21016543
            Assembly: GCF_021137935.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4863)
  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  JOURNAL   Unpublished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 4863)
  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                   :: 266.8688x
            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 03:05:42
            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)                     :: 5,611
            CDSs (total)                      :: 5,484
            Genes (coding)                    :: 5,330
            CDSs (with protein)               :: 5,330
            Genes (RNA)                       :: 127
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 154
            CDSs (without protein)            :: 154
            Pseudo Genes (ambiguous residues) :: 0 of 154
            Pseudo Genes (frameshifted)       :: 67 of 154
            Pseudo Genes (incomplete)         :: 87 of 154
            Pseudo Genes (internal stop)      :: 23 of 154
            Pseudo Genes (multiple problems)  :: 20 of 154
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP083061.1.
            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..4863
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="1613258639"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p6-1613258639"
                     /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            complement(join(4526..4863,1..85))
                     /locus_tag="K9F40_RS27945"
                     /old_locus_tag="K9F40_27925"
     CDS             complement(join(4526..4863,1..85))
                     /locus_tag="K9F40_RS27945"
                     /old_locus_tag="K9F40_27925"
                     /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_045265535.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKAIKVID
                     TSELIRVFGSLDGVIDTVKYDVKSDAESTGVNSVGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKHEPSSPPHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(85..276)
                     /locus_tag="K9F40_RS27950"
                     /old_locus_tag="K9F40_27930"
     CDS             complement(85..276)
                     /locus_tag="K9F40_RS27950"
                     /old_locus_tag="K9F40_27930"
                     /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_045265536.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELALDVEADLCEKLHDDA
                     EHLFRTLSSRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            692..805
                     /locus_tag="K9F40_RS27955"
                     /old_locus_tag="K9F40_27935"
     CDS             692..805
                     /locus_tag="K9F40_RS27955"
                     /old_locus_tag="K9F40_27935"
                     /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="hypothetical protein"
                     /protein_id="WP_032634168.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPERHAKAPLAAATGN"
                     /name="hypothetical protein"
     gene            complement(1042..1410)
                     /locus_tag="K9F40_RS27960"
                     /old_locus_tag="K9F40_27940"
     CDS             complement(1042..1410)
                     /locus_tag="K9F40_RS27960"
                     /old_locus_tag="K9F40_27940"
                     /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_045626380.1"
                     /translation="MKTTDRFISVSFRYFHNVDDIGQSIDSWRVDGSLPDLIEKLVYLT
                     ANGITKVSSDGIFTNYTRFPDSAVNDFKCPDEISVDENWGVIKNIGGQKRRVAGFLKDN
                     VFYIVFFDKDHRFWKSRK"
                     /name="hypothetical protein"
     gene            complement(1483..2781)
                     /locus_tag="K9F40_RS27965"
                     /old_locus_tag="K9F40_27945"
     CDS             complement(1483..2781)
                     /locus_tag="K9F40_RS27965"
                     /old_locus_tag="K9F40_27945"
                     /inference="COORDINATES: protein motif:HMM:NF024700.4"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ATP-binding protein"
                     /protein_id="WP_045265534.1"
                     /translation="MMVNFSLSNAFSFMDAQNMSMLAVSSAKDDINLANVVSVSDVRIL
                     KSALIFGANASGKSNLMKTISLMKDIVLHSVQAIESSITKNVIPFLLDEDGPNKPSEME
                     MTFISDGVKYRYGLSIFQGKIKEEWLYYTPKSRETILFERDGLSIEVNKAAFSESNLFI
                     KEGVIQKTREDVPFVSVVAGFNGEHSKRVVNWFNNIVFLSGSNEGMFTAITMKLINESE
                     DFKAWLKKILPAFQINDIYLDEVAPDFPFGNIKTDDDNLKNLFSSIQNFAKNQKVFSLR
                     VVKKTASGEISVPIDFESEGTKKIVYLLGPIYNAMINGNLLLVDEFDSKFHTLLSKFLF
                     RIFHAQSEGLSQIIAAVQDVNLMNTDCFRRDQIWFVDKDIKSGSSHLYSLVEYKEKQRT
                     LKSSYGHDYLSGAFDAIPLFDNLDEFEKLMPEG"
                     /name="ATP-binding protein"
     Typing          398..805
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.484"
                     /coverage="99.0"
                     /evalue="1.3e-157"
ORIGIN
        1 acttcccact gttaatcatc ttgtaaattg tggggcgact aaccttaaca agccgtgccg
       61 cttcactaat agacactctg gccatcagtt accatcctgt aattcatcca gtctcgagga
      121 cagtgtacgg aaaagatgct ccgcatcatc gtggagtttc tcacaaaggt cggcctcgac
      181 atcgagagca agctcgttaa gcttctccag caggagcaga gactgattct ggatgaattt
      241 agccatgttc agcgctgttt tctgttgttt cgtcataaga agcctcagag cgtcagtgct
      301 cagtgtaaaa ccagtctctt ttccgcttcc tcgctcactc agtcgctacg ctccggtcgt
      361 tcggctgcgg cgagcggcaa gaccattctt ataaaagctc gagaaaaccg agcgatcaag
      421 gtaggaggaa aagaggaggc cgcgcagcgg ccgtttttcc ataggctccg cccccctgac
      481 aagcatcaca gaaacggacg ctcaaatcag tggtggcgaa acccgacagg actataaaga
      541 tacctatcat ttctgatagg cggctccctc gtgcgctctc ctgttcctgc ctttcggttt
      601 accggtgcca ttccgctgtt atggccgcgt ttatctcatt ccacgccaga cactcagttc
      661 cgggtaggca gttcgctcca agctggactg tatgcacgaa ccccccgttc agtccgactg
      721 ctgcgcctta tccggtaact atcgtcttga gtccaacccg gaaagacatg caaaagcgcc
      781 actggcagca gccactggta actgatttag aggagttagt cttgaagtta tgcgccggtt
      841 aaggctaaac tgaaagaaca agttttggtt actgcgctcc tccaagccag ttaccttggt
      901 tctaagagcg ccaactcttg gaaccttcga aaaaaccgcc cgccaaggcg gttttttcgt
      961 ttacagagcg agagattacg acgagaacac agtgatctca agaagatctt gcctcaacat
     1021 acagtacaat cgtaactaag cctatttcct gctcttccaa aaccgatgat ccttatcaaa
     1081 aaaaactata taaaacacat tatcctttaa aaaaccagca acccttcttt tctggcctcc
     1141 tatatttttt ataacacccc agttctcatc aactgatatt tcatcagggc atttaaaatc
     1201 attaactgct gaatctggaa atcgagtgta gttagtaaaa ataccatcag agctgacttt
     1261 tgttatccca ttagctgtaa gataaacaag cttttcaatt aaatctggca aactgccgtc
     1321 aaccctccaa gaatcaatag actgaccaat atcatcgacg ttatgaaaat atctaaaact
     1381 aacagaaata aatctatctg tagttttcat aatgctcttt gaggattttg tttcctcttt
     1441 cctcgaagag ctacgaagac cgcggcctct ctttgacata aatcatccct caggcataag
     1501 tttttcaaat tcatctaaat tatcaaacaa tgggatagca tcaaatgcac cagataaata
     1561 atcatgccca tacgatgatt ttaaagttcg ctgcttctct ttatactcaa ccaaagaata
     1621 gagatgacta cttcctgatt ttatatcttt atcaacaaac caaatctggt cacgtctaaa
     1681 acaatcagtg ttcattagat taacatcctg aacagcagct attatttggc taagcccctc
     1741 gctttgcgca tggaatattc taaacaaaaa cttagacaaa agggtgtgaa acttagaatc
     1801 aaactcatca actaacaata agttaccgtt tatcatggca ttgtagattg gaccaagaag
     1861 ataaactatc tttttagtac cctcagactc aaaatcaata ggtactgaaa tctcaccgct
     1921 agctgttttt ttcactactc taagagaaaa aaccttctgg ttttttgcaa aattttgtat
     1981 tgaactaaat aaatttttta aattatcatc atctgttttt atatttccaa atggaaaatc
     2041 aggtgcgacc tcatcgaggt aaatatcatt aatctggaat gctggaagta ttttttttag
     2101 ccaagcctta aaatcctcag actcatttat taacttcatg gtaattgctg taaacatccc
     2161 ttcattagaa ccagaaagga atacgatatt gttaaaccaa ttaactactc gttttgaatg
     2221 ctcaccatta aaaccagcaa caaccgaaac aaatggaaca tcctcccttg ttttttgaat
     2281 aaccccttct ttgataaaaa ggtttgactc actaaaagcc gccttattta cctcaataga
     2341 aagaccatct ctttcaaaga gaatggtttc tcttgatttt ggtgtgtagt acaaccattc
     2401 ttcttttatt ttcccctgaa aaatagacaa tccatatcta tatttaaccc catctgaaat
     2461 aaaagtcatt tccatttcag atggtttatt tggtccatcc tcatcaagca aaaacggtat
     2521 tacgttcttt gtaatgctac tttcaatagc ttgcacggaa tgcaaaacaa tatctttcat
     2581 taaagaaatt gttttcatga gattagactt cccgctagcg ttagccccaa atatcagagc
     2641 agatttcagt atccgaacat cactcactga aaccacgtta gccaagttta tgtcgtcttt
     2701 cgcggatgac accgccaaca tgctcatatt ttgagcatcc ataaaggaaa atgcgttaga
     2761 aagactaaaa ttaaccatca taagaacacc ccttacgcca tccttaaaca acaaaatgag
     2821 taaatattga caaaatcagg acttaaggat agcatacaag cgttctaaaa caacaggtgc
     2881 gtttaataga tagcacgtta tggaacactt gttaaaaaaa gctaaatgca gggggtctat
     2941 gagatttttt ctataccaaa tggttccttt agccgcagtt gtcagctcag cagtgctagc
     3001 tttacactcg gtttcaggat ggggatggtt tctctttgta gcatttatgc tcagcggagc
     3061 tgatacagtg aagaaacatc taggaaatga cgcatgaaag gagaaaaacg acgttttttg
     3121 aagtaagtgg gttagcctgt accaccagaa ctaacccgta acaaaccata cacaaatgcg
     3181 gcacttgagt accacctcaa gagcttgata aagccagcca caagatttgt tggttgctac
     3241 agtacaattt tgatagcaaa aatcaacact catgtggcga aaaataggaa atgcaccatg
     3301 cagacagacg agtctcaggc atacattttt cgcccttata tcacagtaaa gggcaaacgg
     3361 atcacccgtc caaacggtgg gatgttcaaa attccaatta atcgtgaaaa gaagaagtaa
     3421 gttgtgactg cagccctaac gggctgcccc acatttgatt aaagaggatg gttctatgtc
     3481 agtttactgt gtctcttatg acctgaatca agcaggtcaa aactacaatg cactatatga
     3541 tgagttaaaa aaatcgccgg ggtggtgcca ccctttagat tccacatggc taatatcaac
     3601 cggagaaaca gcgcaacaac tgtcggatcg tttgcgtagg catctggaca ataatgacac
     3661 cttgcttgtg attggtgtaa ccaaagaata cgcaggatgg ctcacccaag acacatggga
     3721 ttggatgaga acagatatat agatataaag ccctgcgggg ctttttttac gtctgtagct
     3781 ggtgtggatt taacataacc ccctaattgt acgcaccgct aaaacggcct cagggcgttt
     3841 ctgacgggaa accggtaaaa caggcaacaa accacccgaa aacccgccag aaacgcgcag
     3901 gctctgtttt tacggcatgc atgagtatgc acgcaagtgc atagcgcgaa aattcacgcc
     3961 attcagccag ggtaagtcct gtttccggcg ttcttcccat ccgaaaacgg tgaacgggga
     4021 cgcaatttat tgcgtggccg tgaagcgttg ccggcgcagc cggaaaaccg gttttcagca
     4081 cgttcagaaa tcgggttcgt cgacggccgg caatcacgtt atggcaagtc gccggacgac
     4141 tcaccacacg attcaccggc gaatcttcac tagagtcgta cccagagtcg ccgagtctaa
     4201 aaaacaacca aacggggagt cgtgtctaga gtcgggtcgt tattaactta ttgtttttat
     4261 agtcctgagt cgttaccgac tctatgacga ctcgccgggg actctatgac gactcgtcat
     4321 agagtcggat ctatataaat aaaatttaaa aaacgaaatt tcaggaaagt aacccactga
     4381 tattaaatac aaatctgcaa aatgttaatt ttgcgtgggg tgtgggtatt tttagtggtg
     4441 aggagcgttc agagatctga cgatttttgg gaaggttcag gaactccccg ggatggccgg
     4501 agaggaaaac ggaagcatga cggggtcagg attttttcca gaatttccac cacggggaat
     4561 ggggtggtga agaaggttcg tgcttgtgct ccagaagctg catagcctga cgaagggaat
     4621 caatatgctc atctcgagcc ttaacagccc ctttaagacc atcgttttca gcttcaagta
     4681 aagcgattct atgttgtaaa tcatgtaaac caacgctgtt aacacctgta gattctgcgt
     4741 cactttttac atcatatttt acagtatcga tgacaccatc aagagaacca aacactctaa
     4801 taagctctga agtatcaata actttaatag ccttaccgtg ctttacaaca gaggtgtaac
     4861 tta
//
