LOCUS       NZ_CP083029             5359 bp    DNA     circular CON 10-FEB-2024
DEFINITION  Klebsiella pneumoniae strain 6604.68 plasmid p3-6604.68, complete
            sequence.
ACCESSION   NZ_CP083029
VERSION     NZ_CP083029.1
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 5359)
  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  JOURNAL   Unpublished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 5359)
  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
            CP083029.1.
            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..5359
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="6604.68"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p3-6604.68"
                     /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            complement(join(5166..5359,1..70))
                     /locus_tag="K9F26_RS27390"
                     /old_locus_tag="K9F26_27345"
     CDS             complement(join(5166..5359,1..70))
                     /locus_tag="K9F26_RS27390"
                     /old_locus_tag="K9F26_27345"
                     /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="hypothetical protein"
                     /protein_id="WP_054175658.1"
                     /translation="MAAYTSETEKFLQSVSSDQTWWKSRYNPGDSVPHSGIYRCTVCGK
                     EITSNGSDPFPPQNHHQHSQQQAIKWQLIVRTDTKGDRFGIK"
                     /name="hypothetical protein"
     gene            complement(488..904)
                     /locus_tag="K9F26_RS27395"
                     /old_locus_tag="K9F26_27350"
     CDS             complement(488..904)
                     /locus_tag="K9F26_RS27395"
                     /old_locus_tag="K9F26_27350"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001283459.1"
                     /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_032419562.1"
                     /translation="MSDQKNNLDIQKQTLESKWGKEALSMGWSAIPTSLFFLQGALNMT
                     PTTFNVLLHLIIHWWKPYDWPHPSQESIAVRMGVSSRTVQRSLQELENYGLLTKIRTSK
                     DNPKYKGRNIYDMSLLVKSLNILTPDLNAKLNEK"
                     /name="helix-turn-helix domain-containing protein"
     gene            1252..1926
                     /locus_tag="K9F26_RS27400"
                     /old_locus_tag="K9F26_27355"
     CDS             1252..1926
                     /locus_tag="K9F26_RS27400"
                     /old_locus_tag="K9F26_27355"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001259273.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NYN domain-containing protein"
                     /protein_id="WP_032419561.1"
                     /translation="MRTIVYVDGFNFYHGLVKRSGYKWLDLYKLFEEQLLPIRARESQL
                     IQVKFFTAEIKAKFASRGELAHQAQQAYHRALVQIYGDKLQIIKGYYSERQECAMTFNE
                     GHPPSKTDRTTVWKLEEKQTDVRMALEMYRDAIRGEVEQLVLCTNDSDMIPPIEMIKAD
                     RPELKIGIVVPREQDTSRVISNLASLGDWSLPYVSYEALRLALLPDKVPTRRKPILKPN
                     HW"
                     /name="NYN domain-containing protein"
     gene            2917..3237
                     /locus_tag="K9F26_RS27405"
                     /old_locus_tag="K9F26_27360"
     CDS             2917..3237
                     /locus_tag="K9F26_RS27405"
                     /old_locus_tag="K9F26_27360"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_042863636.1"
                     /translation="MLTMWVTEDEHRRLLERCDGRQLAAWMRQTCLDEKPARAGRLPSI
                     SPALLRQLAGMGNNLNQIARKVNAGGAGHDRVQIVAALMAIDAGLERLRHAVLEKGGDD
                     DR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            3446..>3877
                     /locus_tag="K9F26_RS27410"
                     /pseudo=""
     CDS             3446..>3877
                     /locus_tag="K9F26_RS27410"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            3915..4400
                     /locus_tag="K9F26_RS27415"
                     /old_locus_tag="K9F26_27370"
     CDS             3915..4400
                     /locus_tag="K9F26_RS27415"
                     /old_locus_tag="K9F26_27370"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001749519.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_055314654.1"
                     /translation="MSSLLALAKDLEQQSKAQQQSTGEMLKAAFSEHEKSVKAELSASA
                     KRISDAISAHEQGMTAAMQSNRLSVLRMVGRTWLTITLVSVLLIAMSGSILWWQGQQIT
                     GNYQTIRAQERTQAMLSEKNHGVQLSLCGEKKLSCVKVNPKAGAYGEEGNWMVLERK"
                     /name="MbeB family mobilization protein"
     gene            4404..4616
                     /locus_tag="K9F26_RS27420"
                     /old_locus_tag="K9F26_27375"
     CDS             4404..4616
                     /locus_tag="K9F26_RS27420"
                     /old_locus_tag="K9F26_27375"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137423.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_000137423.1"
                     /translation="MTELEKQLLTALEQLHQDYSQRLDEWESAFAEWQKMSGLMQRENA
                     ALNERVTRLSQQVANLSRQLQRLSQ"
                     /name="MbeD family mobilization/exclusion protein"
     Typing          2629..2809
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="87.978"
                     /coverage="83.0"
                     /evalue="2.08e-53"
     Typing          complement(2169..2679)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.969"
                     /coverage="98.0"
                     /evalue="0.0"
     Typing          3228..4732
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="94.622"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 acttccacca tgtttgatcg ctactgacgc tttgtaaaaa cttctctgtt tcgctggtat
       61 atgcagccat ttagctttcc ttttctgaat ttatagggca gagatagaaa agccgcccgc
      121 tggggcggct tttcgttgcc agtctaaata tcaagcatat tgggttaaca tccaggttac
      181 agcctttcct gcgtacggag gcattacatt accttttgct atcggggctg tagtggaagg
      241 ggttcctacg actttccaga caccactttc aggacacttt tgtccggtag aagcagtcgt
      301 accaattggt gctttagaca tgctaattcc tctttttgtg ttttgtccgt attgctgttt
      361 gtgtagcgat actgatgttt agtttagaaa ttagctttca atagggagct gttgtcattt
      421 tctagaaatg tgatgctgaa caccttttgt acagtgatgt gcgcgctttg gctgtcggaa
      481 tttttggtta cttttcgttt agtttggcgt tgaggtctgg cgtaagaatg tttagtgact
      541 taactaaaag agacatatcg taaatgtttc gccctttgta cttagggttg tccttgcttg
      601 tacgaatttt tgtaagcaat ccgtaatttt caagttcttg gagtgagcgt tgaactgttc
      661 ttgatgaaac tcccattcta accgcgatgc tctcttgaga tggatgtggc caatcatagg
      721 gtttccacca gtggataatt agatgaagta gcacattgaa tgttgtgggg gtcatattga
      781 gtgcgccctg caggaagaaa agggatgtag gaatggctga ccatcccatg cttaacgctt
      841 ccttccccca tttagactca agtgtctgtt tttgaatgtc taaattattt ttttgatctg
      901 acatatacca acctgctaag ctgaagtctt cttagaagac ttcagcttag caggttggta
      961 aattaattca tataattagt acgacaccag tgcgcttata atatcattat atttaactat
     1021 acttaatcta cactcacctc ttggtagcgc gattaagtta cgcagctccc ttgaggctct
     1081 aaacctccct ttaggtgggc agcgattaag ttacgcgtct tccttcagga gcttgaaacc
     1141 gccctctcgg ttagttttaa ccctgaggta ctacaactta aactgtttgc taacgttagt
     1201 ttttgttgtt aaaaccgccc ttagaggcgg tttttttatg cgcgaaataa aatgagaaca
     1261 atagtttacg tagatgggtt caatttttat cacggattgg ttaagcgttc gggatataag
     1321 tggttagacc tttataagct ctttgaagaa caactgcttc cgataagagc acgagaatca
     1381 cagttgattc aggtgaagtt ctttactgct gagatcaagg caaagtttgc ttctcggggt
     1441 gaattggcgc accaagctca gcaagcctac catcgagcat tagtacagat ctatggcgat
     1501 aagctacaga taataaaagg ttattactca gagcgtcagg aatgtgcaat gacctttaat
     1561 gaggggcatc ctccatcaaa aacggataga acaacggtct ggaagttaga agaaaagcag
     1621 acagacgtta gaatggcttt agaaatgtat cgcgatgcga ttcgtggtga agtagaacaa
     1681 ttggttctct gcactaacga ctcagatatg ataccgccaa tagaaatgat aaaagctgat
     1741 cggcctgagt taaaaatagg aatcgtagtg ccaagggaac aggatactag tcgagtgatt
     1801 agtaatctgg ctagtttagg ggattggagc ttgccatatg tatcctatga agccttaaga
     1861 ttagctttat tgccagataa agtccccact aggcggaagc caatactgaa gccaaatcac
     1921 tggtaaacag ccggatcttc ttgtgatcct tttactctcg tcgtaatctc atgccctgca
     1981 aacaaaaaaa ccaccgctac caacggtggt tcgtttgccg gaatcaagag ctaccaactc
     2041 tttttcccga aggtaactgg ctttcacgga gcgcagatac caaaactgtc cttccagtgt
     2101 agccgcagtc aggccaccac ttcaagaact ctgtagaagc actctactac tctgctccgt
     2161 gaatcctgtt accagtggct gctgccagtg gcgtttttgc gtgtctttcc ggattggact
     2221 caagacgata gttaccggaa aaggcgcagc ggtcggactg aacggggggt tcgtgcatac
     2281 agtccagctt ggagcgaact gcctacccgg aactgagtgt caggcgtgga atgagaaaaa
     2341 cgcggccata acagcggaat gacaccggta aaccgaatgg caggaacagg agagcgcacg
     2401 agggagccat cagggggaaa cgcctggtat ctttatagtc ctgtcgggtt tcgccaccac
     2461 tgatttgagc gtcagatttc gtgatgcttg tcaggggggc ggagcctatg gaaaaacggc
     2521 agcgccgcat ccttttcccg ccctgcttgt catgtcatat gcctttgctc ttatccgtgt
     2581 gtgcgtaacg cccgccgcag ccgaacggca ggagcggaag cgaccgagtg agcgaggagg
     2641 cgtcatatca ccgtaacctc cattttctcc tgtacgccct gtagctgcat tttccccctg
     2701 tcacatgaag cactttcata aagtgttact cctccgtaac atattgagcc agtatacact
     2761 ccgctagcgc tacgtgactg gttcagggct gcgccccgaa acccgctaaa agccactgac
     2821 gcgcctgcgg cttgtccaac accgtgccga ccgggaaaca tttcccgccc gtcccggtgt
     2881 tctcaggagg ctactctggc agacaaacgc aacaagatgc tcacgatgtg ggtgacggaa
     2941 gacgaacacc ggcggctgct cgagcggtgc gacggcaggc agctggcggc gtggatgcgt
     3001 cagacctgcc tcgatgagaa gccggcgcgt gccggcagac tgccgtcgat atcgccggcg
     3061 ctgctgcgcc agcttgccgg tatggggaac aacctgaacc agatcgcccg gaaagtgaat
     3121 gccggtggtg ccggtcatga ccgggtgcag attgtggccg ccctgatggc aatcgacgcg
     3181 ggactggagc ggctgcggca tgcggtgctg gaaaaagggg gggatgatga tcgttaaatt
     3241 tcacccccgg gggcgcggtg gtggtgccgg tccggtggat tacctgctgg gaaaagaccg
     3301 gcagcgcgag ggggcgaccg tgctgcaggg aaaaccggag gaagtccggg agcttatcga
     3361 tgcctcgccg tatgcgaaaa agtacacctc cggcgtgctg tcgttcgcgg aggctgaact
     3421 gccgcccggg cagcgggagc agatcatggc cagctttgag cgggttctga tgcccgggct
     3481 cgataaagac cagtacagca ttctgtgggt ggagcatacc gacaagggga ggctggagct
     3541 gaatttcctg atccccaaca ctgaactgct gaccgggaaa cgcctgcagc cgtactacga
     3601 tcgcgccgac cggccgcgca tcgatgcctg gcagaccgtg gtgaacggca gactggggct
     3661 gcatgatcca aacgccccgg agaaccggcg gttactggtc acgccgtccg cactgccgga
     3721 aacgaagctg gaagccgctc aggcgattac acgggggttg ctggccttag cctcatccgg
     3781 ggagctcaaa acgcgcgagg acgtcacagg ggcgctcaca gcggcaggtt ttgaggtggt
     3841 ccgcaccaca aaaaacagta tcagcattgc cgacccggac ggggggcgaa acatccgact
     3901 gaagggagcc atttatgagc agtcttttag cgctggcgaa ggacttggag cagcaatcga
     3961 aagcgcagca gcagagtacc ggcgagatgc tgaaagccgc attcagcgag cacgagaaat
     4021 ctgtaaaagc ggaactgagc gcaagcgcga agagaatcag cgacgccatc agcgcccacg
     4081 agcagggtat gaccgcggcg atgcagtcga accgcctgag cgtgctgcgt atggtcggcc
     4141 ggacgtggct gaccatcacc ctggtctcgg tactgctgat cgccatgagc gggagcattc
     4201 tgtggtggca ggggcagcag atcaccggga attaccagac tatccgggcg caggagcgga
     4261 cgcaggccat gttgtcggag aaaaaccacg gcgttcagct gtcgctctgc ggggagaaga
     4321 aactgtcctg cgtcaaagtg aacccgaaag cgggagctta cggggaggaa gggaactgga
     4381 tggtactgga gaggaaatag cccatgacgg aactggaaaa acagttgctg accgcattag
     4441 agcagctaca tcaggactac tcgcaaaggc tggacgagtg ggagagcgcc ttcgcggaat
     4501 ggcagaagat gtctggtctt atgcaacggg agaacgcggc gctgaacgag cgcgtcacgc
     4561 gcttgagtca gcaggtggcg aacttgagca ggcagttaca gcgtttgagc cagtagtgca
     4621 gcggcatgaa atggcggtgg ccgccgaacg ggcatacgag cagcgacagc acgaaaaaga
     4681 gctggcggaa gcccgttccc gtcagcggag ttatgacggt ccgacactgg gctgaacagt
     4741 atcatccggt gacaggccgc acgaagaagg gctcttattt ctcccgctaa ataggttcgt
     4801 gatcaaaaag agcacggcct atacctaggg ggaattatga aattgcttaa cgtcattgaa
     4861 gctgtactta actgcctgta tctggcgacc gagctgtggg actggctgga gaagcatttt
     4921 cctgttttta aggcgttcat ccggattctg gcctgaaatc agactgtatg catctggctg
     4981 catgaccatg cagccgggga aaatttatct gtcacgaacg gggcggtgta tcgggtggtt
     5041 tgttgccggt tttacctgac tgccgtcccg tttgtggcga acctgtccgg agcggtgcgg
     5101 gcaagggatg ttatggtaaa tatcttcgag cttcaggtac aaaaaaagcc ccggagggct
     5161 ctcaatcatt tgattccgaa acggtcacct ttagtgtccg ttctgacaat caattgccat
     5221 ttgattgctt gttgctgact gtgctgatga tggttttgcg gcgggaacgg gtcgctgccg
     5281 ttactggtga tctcttttcc gcagacggta catcgataaa ttccagaatg gggaacgctg
     5341 tctcctggat tatatcgtg
//
