LOCUS       CP128682                4907 bp    DNA     circular BCT 03-JUL-2023
DEFINITION  Klebsiella pneumoniae strain KPN68 plasmid pKPN68_2, complete
            sequence.
ACCESSION   CP128682
VERSION     CP128682.1
DBLINK      BioProject: PRJNA788509
            BioSample: SAMN35878170
KEYWORDS    .
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4907)
  AUTHORS   Kochan,T.
  TITLE     Klebsiella pneumoniae Clinical Isolates with Features of Both
            Multidrug-Resistance and Hypervirulence Have Unexpectedly Low
            Virulence
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4907)
  AUTHORS   Kochan,T.
  TITLE     Direct Submission
  JOURNAL   Submitted (23-JUN-2023) Microbiology & Immunology, Northwestern
            University, 303 E Chicago Ave, Ward 6-035, Chicago, IL 60611, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: trycycler v. v0.4.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 47.7402890877448x
            Sequencing Technology :: Oxford Nanopore MinION/GridION, Illumina
            NovaSeq/MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 06/26/2023 13:15:05
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,292
            CDSs (total)                      :: 5,172
            Genes (coding)                    :: 5,022
            CDSs (with protein)               :: 5,022
            Genes (RNA)                       :: 120
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 150
            CDSs (without protein)            :: 150
            Pseudo Genes (ambiguous residues) :: 0 of 150
            Pseudo Genes (frameshifted)       :: 88 of 150
            Pseudo Genes (incomplete)         :: 61 of 150
            Pseudo Genes (internal stop)      :: 27 of 150
            Pseudo Genes (multiple problems)  :: 21 of 150
            ##Genome-Annotation-Data-END##
            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/
FEATURES             Location/Qualifiers
     source          1..4907
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="KPN68"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pKPN68_2"
                     /geo_loc_name="USA: Chicago"
                     /lat_lon="41.8945 N 87.6208 W"
                     /collected_by="Fiorella Krapp"
     gene            255..980
                     /locus_tag="QU740_26425"
     CDS             255..980
                     /locus_tag="QU740_26425"
                     /EC_number="2.1.1.-"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004193434.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology. GO_function:
                     GO:0003677 - DNA binding [Evidence IEA]; GO_function:
                     GO:0008170 - N-methyltransferase activity [Evidence IEA];
                     GO_process: GO:0009307 - DNA restriction-modification
                     system [Evidence IEA]"
                     /codon_start=1
                     /transl_table=11
                     /product="site-specific DNA-methyltransferase"
                     /protein_id="WJT94537.1"
                     /translation="MDLFNVDAVEWLKTLPSGSVDMVVTDPPYESLEKHRKIGTTTRLK
                     VSKSSSNEWFSIFPNDRFESLLSEIHRVLKNNRHFYIFCDQETMFLLKPIGEKVGFKFW
                     KPIVWDKKAIGMGYHYRAKYEFILFFEKGKRKLNNLGIPDILESKRIRNGYPTEKPVEL
                     LELLIQQSTERGELVIDPFFGSGSALKAALNQGRLCAGNDISASAHAYFRDTHLPDDLK
                     SAALTPALPVEQAARICTK"
                     /name="site-specific DNA-methyltransferase"
     gene            1197..1523
                     /locus_tag="QU740_26430"
     CDS             1197..1523
                     /locus_tag="QU740_26430"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006674374.1"
                     /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="WJT94534.1"
                     /translation="MEKRTKEIKIRLTETEHQRLLDRCDRTHLAEWLRQLGLGEHISRK
                     RRVPDVAPELLRQVSGIGNNLNQIARRLNQTDSLTPAERASLLVVLTSLDRQLGDLLEQ
                     NRDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1732..2154
                     /locus_tag="QU740_26435"
                     /pseudo=""
     CDS             1732..2154
                     /locus_tag="QU740_26435"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /note="incomplete; partial on complete genome; 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            2201..2686
                     /locus_tag="QU740_26440"
     CDS             2201..2686
                     /locus_tag="QU740_26440"
                     /inference="COORDINATES: protein motif:HMM:NF016710.2"
                     /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="WJT94535.1"
                     /translation="MSEILNLAKGFEEKSKQQAQDTEQSVKREFARLETSISAELQSSS
                     QSISNAIREQNGRLTGMLRASVSTAMAWIFICFALLIGILSGIIWFQGTIITSRLSEMD
                     SYSQQLESLKAKSGAGVAIYSDDKHRNTYMVVLPKQAHGVETYTSTTDNTVVKYTAK"
                     /name="MbeB family mobilization protein"
     gene            2756..2980
                     /locus_tag="QU740_26445"
     CDS             2756..2980
                     /locus_tag="QU740_26445"
                     /inference="COORDINATES: protein motif:HMM:NF016769.2"
                     /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="WJT94536.1"
                     /translation="MEKQLLSALESLQTSYEQQQQAWQDSYSSLQHMFEATSQALTHSD
                     RVCQHLSSQVESLRAQVESLSRNVSRLMR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            3136..3468
                     /locus_tag="QU740_26450"
     CDS             3136..3468
                     /locus_tag="QU740_26450"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015873600.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WJT94531.1"
                     /translation="MSHAIEFIETPMFTRQIKQIATDEELRELQKTLIESPDKGDLIQK
                     TGGLRKIRMATGNQGKSGSVRVIYFLATAEVIYLVMAYPKSTKDSLTDAEKAALKTLTQ
                     QLKNEV"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            3470..3754
                     /gene="nadS"
                     /locus_tag="QU740_26455"
     CDS             3470..3754
                     /gene="nadS"
                     /locus_tag="QU740_26455"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000007431.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NadS family protein"
                     /protein_id="WJT94532.1"
                     /translation="MSFFDELKASLEEAVEIKNGVREPARVTRYELADVKAIRAQLNVS
                     QSEMAKVLGTSLDTIKSWETGRRNPTGLAAKVLATIQANPKFFQELAAH"
                     /name="nadS"
     gene            3947..4840
                     /locus_tag="QU740_26460"
     CDS             3947..4840
                     /locus_tag="QU740_26460"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001517860.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WJT94533.1"
                     /translation="MNNAVLELFNDRLPHKPYFSDDLHFGVRIAGKERAILAKYIQFNQ
                     PHAMFWLGFDVDRAGAAIDWSDRNAPAPTLTITNPENGHAHLLYALETSIRTAPDGKMK
                     PLRYAAAVENALRKKLEADAGYSGLICKNPNHGHWKIAVWQPELYTLDWLADFLDLNAA
                     NDKEIVADYGLGRNCTLFDKTRKWAYRAIRQGWPEYEQWLQACYERASAYNLQFAVPLD
                     DKEVNDIAKSIAKWTLKRLDESTFKQYVLDTHSPEIQSVRGKRSKRGASLFSERTLEPW
                     VELGISRRKYYYDKKK"
                     /name="replication initiation protein"
     Typing          complement(1331..1523)
                     /name="Col(Ye4449)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="80.513"
                     /coverage="100.0"
                     /evalue="1.87e-33"
     Typing          1514..3072
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.126"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gttgatttaa gcattgctat tagaagtgct gataatacgt taaaatcatg ccctaggtgt
       61 tctcaaactc acggttcact tcatattttt cgtaggcttg ttgaagactt cggttttact
      121 gaccgtcgag taacggcaaa taacccagat ggtgtacata gccattgcat tgattgtcgt
      181 aataaagggc ctggtgaacc atcttctgtc gatttatctc atgagattaa gtgcaatatg
      241 gtagctaaag cgtgattgat ttgtttaatg ttgatgcagt tgaatggtta aagacgctcc
      301 ctagcgggag cgtcgatatg gtggtcacag accccccgta tgaatcgtta gagaaacaca
      361 ggaagatagg tactacaaca aggcttaagg tgagtaaatc atctagcaat gaatggttca
      421 gtattttccc aaacgatagg tttgaatcgt tgctttctga aattcatagg gtgcttaaaa
      481 ataataggca tttttatata ttttgtgacc aagaaacaat gtttctttta aaacccattg
      541 gagagaaagt aggatttaaa ttttggaagc ctatagtttg ggataaaaag gctatcggga
      601 tgggctatca ctacagagcg aagtatgagt ttattctatt ttttgaaaag ggtaaaagaa
      661 agctaaataa tttagggata ccagatatat tagaaagtaa aagaattaga aatgggtacc
      721 caacggagaa acctgtcgag ttgctggagc tattgataca gcaaagtaca gagcgtggag
      781 agcttgtgat agaccctttc tttgggtccg gctcagcact aaaagcagct ctcaatcagg
      841 gacgtctttg cgctggtaat gatatatcag catcggcaca cgcttacttt agagataccc
      901 atctccctga cgatctaaaa tcagcagcac tcactccagc gcttcccgtt gagcaggctg
      961 cgagaatttg caccaaataa cctatatcag ataacagccc tctctagcag agggcttttt
     1021 ttttgcaacc agcactgaat ctgtcatact gcactttccc ctaagtcagt acacacagcg
     1081 tcccctctaa cgaggtgcca ccgtgactgg ttcagggggc tcgccgcccc ccgaaacccc
     1141 cggcatccac tgcgaaaaat tctcacggtg gtgcgaattt tttctcagcg gagcctatgg
     1201 aaaagcgaac gaaagagatc aaaatccggc tcaccgaaac tgagcatcag cggctgcttg
     1261 accgctgtga ccgtactcac cttgccgaat ggttacgtca gctcggtctg ggtgaacaca
     1321 tctcacgcaa gcgccgtgtg cctgatgtgg cgcccgaact gctgcgacag gtcagcggga
     1381 ttggcaataa cctgaaccag atcgcccgtc gcctgaatca gactgattcc ctgacgcctg
     1441 ctgaacgtgc ctcgctgctc gtcgtactga ccagccttga ccgtcagctt ggcgacctgc
     1501 tggagcagaa ccgtgatcgt taaaattcac tcgcggggtg cgggttcggg tagcggtcct
     1561 gtggattacc tgctgggaaa agaccggcag cgcgaacagg ccaccgtact gcgcggcaat
     1621 cctgaacatg tgcgggagct gatcgacggc tgcgactttg cccgcgccta tacttccggc
     1681 gtgctttcat tccaggaacc tgacattgca gacgtggaga aatcgcgcct gatggacgaa
     1741 tgggagcaca cgctgctgac cggcctcgac cgcgaccagt acgcctgcct gtgggtagag
     1801 catcgcgaca agggacggct tgagctgaat tttgtcatcc cgaacatcga attgcagagt
     1861 ggaaaacgcc tgcaacccta ctttgaccgc gccgaccgtc cccgcgtcaa cgcctggcag
     1921 accctgacca acgaccggct ggggctgcgc gacccgaacg acccgatcta ccgccgtccg
     1981 ctgacgcagg ccagcgatct gccccgcgac aaacagcagg cggcagagaa aatcaccgcc
     2041 ggcctgatga acctgatgca gcagggcgtg atccgcagcc ggcaggacgt ggtgacgcag
     2101 ctggaaagct acggcctgac cgtggcgcgg gaaacgaaaa gcagcatcag cattgccgat
     2161 ccggacggcg gccgaaatat ccggctgaaa ggaatgattt atgagcgaga ttttaaattt
     2221 ggcgaagggc ttcgaggaga aatcgaagca gcaggcgcag gataccgagc agagcgtgaa
     2281 gcgcgagttc gcgaggctgg agacgtctat cagcgcggaa ctgcaatcaa gctcgcagag
     2341 catcagcaac gctatccgcg agcagaacgg cagactgacg ggcatgctca gagcctctgt
     2401 ctcaacggcg atggcgtgga tattcatctg cttcgccctg ctgatcggca tcctgagcgg
     2461 gataatctgg tttcagggca cgatcatcac ctcgcgcctg agcgagatgg acagctacag
     2521 ccaacagctg gagagcctga aagcgaaaag cggcgcgggc gtggcgatct acagcgacga
     2581 caagcaccgg aacacctaca tggtggtgct gccgaagcag gcgcacggtg tggaaaccta
     2641 tacatcgacg accgacaaca ccgtagtgaa atacacggcg aaataacccc gtcagagcgc
     2701 cctgaaacga cacagcgcgt ttttaacacc gaggatgacc aaaacgatga ccgagatgga
     2761 aaaacagctt ctgagcgcct tagagagctt acagacaagc tacgagcaac agcagcaggc
     2821 gtggcaggac agctacagca gcttgcagca catgttcgag gctacttcac aggcgctgac
     2881 gcacagcgac cgggtgtgtc agcacttgag cagtcaggta gagagcttgc gcgcgcaggt
     2941 cgagagcttg agcaggaacg tcagccgctt gatgcgctga ttgcacagca tgaccgcgcc
     3001 agtgaggaga agctgcgcga gcagcagccg gggccgcaga aaaaaacgac tcgttactat
     3061 ggcccctcga tgtgaccgct tttccgaaat cagaattaag tgtactatgt actccgttaa
     3121 aaacaggaga cagccgtgag tcacgcgatt gagtttatcg agaccccgat gtttacccgt
     3181 cagataaaac agatcgccac ggatgaagaa ctcagggaac tgcaaaagac gctgattgag
     3241 tcgccggaca aaggcgatct cattcagaaa accggcgggc tgcgcaaaat caggatggcg
     3301 acgggcaacc agggaaaaag cggcagcgtg agggtgattt actttctggc caccgccgag
     3361 gtgatctatc tggtgatggc ctacccgaaa agcaccaaag acagcctgac ggacgcggaa
     3421 aaagccgcgc tgaagacgct gacccaacaa ctgaaaaacg aggtgtgaca tgagtttttt
     3481 tgacgagctg aaagcatcgc tggaagaagc cgttgaaatc aaaaacggcg tcagagagcc
     3541 tgcccgcgtc acccgttacg agctggcaga cgtgaaagcc atcagggcac agctgaacgt
     3601 atctcagagc gagatggcaa aagtgctggg aaccagcctc gacaccatca agagctggga
     3661 aaccggacgc cgtaacccga ccggactggc ggcgaaggta ctggcaacca tccaggcgaa
     3721 cccgaaattc ttccaggaac tggcggcgca ctaagccgtt gtgacagaag gattcgacag
     3781 gcgaggccgt tcgcgtgtaa tttaacggca acagaaaaaa caaagccccg gaaatcatgc
     3841 tcaatcttgg cggatgcaca tgataaccag ggccaggtcg aaaccttgaa aggatattag
     3901 cacatgaaac gtgccagaca acagcccgcc ataagcgcag ggcgaattga ataacgcagt
     3961 actcgaactt ttcaacgacc gcttaccgca caagccgtac ttctcggatg atttacactt
     4021 tggtgtacgc attgcaggga aagaacgcgc cattttggcg aaatacatcc agttcaatca
     4081 gcctcacgcc atgttctggc tgggattcga cgtcgatcgc gccggtgccg ccatcgactg
     4141 gagcgatcgc aacgcgcccg cgcccacgct gaccatcacc aacccggaaa acggacacgc
     4201 gcacctgctg tacgcgctgg aaacctcgat acgcaccgca cctgacggga aaatgaagcc
     4261 gctgcgctac gctgccgccg tggagaacgc gctgcgtaaa aaattagagg ctgacgcggg
     4321 gtattcgggg ttaatctgca aaaatccgaa ccacggccac tggaaaattg cggtgtggca
     4381 gccagaactc tacacactgg actggctggc tgactttctc gacctgaacg ctgcgaacga
     4441 caaagaaatc gttgccgact acggcttagg ccgtaactgc acgttgttcg acaaaacccg
     4501 caagtgggca taccgcgcca tccgtcaggg ctggcctgag tatgagcagt ggctgcaagc
     4561 ctgctatgag cgtgccagcg cctacaatct gcaatttgct gtgcctttgg atgataaaga
     4621 ggtcaatgat attgcaaaga gtatcgccaa atggactctt aaaagactcg acgagtctac
     4681 ttttaagcag tatgtattag atactcattc ccctgagatt caatcagtaa ggggaaagag
     4741 gtcgaaaaga ggcgcatcat tattttctga aagaacttta gagccttggg ttgagcttgg
     4801 tattagtcgt agaaaatact actacgacaa gaaaaaatga tgtttttaat ttgattcaca
     4861 gcattgttaa tttggaggtt tatatgagtt cttgtacctg ttgtggt
//
