LOCUS       NZ_CP040037             4938 bp    DNA     circular CON 28-NOV-2023
DEFINITION  Klebsiella pneumoniae strain KPC160117 plasmid pCol4401-L117,
            complete sequence.
ACCESSION   NZ_CP040037
VERSION     NZ_CP040037.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN11246288
            Assembly: GCF_011106775.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4938)
  AUTHORS   Lai,Y., Lu,M., Tang,H., Chiou,C. and Chen,Y.
  TITLE     OXA-48 Klebsiella pneumoniae in central Taiwan
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4938)
  AUTHORS   Lai,Y., Lu,M., Tang,H., Chiou,C. and Chen,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (02-MAY-2019) Microbiology and Immunology, Chung Shan
            Medical University, No.110, Sec.1, Jianguo N.Rd, Taichung 414,
            Taiwan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. May-2018
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 10.0x
            Sequencing Technology :: Oxford Nanopore MiniION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/28/2023 08:20:09
            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)                     :: 5,799
            CDSs (total)                      :: 5,675
            Genes (coding)                    :: 5,562
            CDSs (with protein)               :: 5,562
            Genes (RNA)                       :: 124
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 113
            CDSs (without protein)            :: 113
            Pseudo Genes (ambiguous residues) :: 0 of 113
            Pseudo Genes (frameshifted)       :: 49 of 113
            Pseudo Genes (incomplete)         :: 62 of 113
            Pseudo Genes (internal stop)      :: 12 of 113
            Pseudo Genes (multiple problems)  :: 10 of 113
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP040037.1.
            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..4938
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="KPC160117"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pCol4401-L117"
                     /geo_loc_name="Taiwan:Taichung"
                     /lat_lon="23.3 N 120.9 E"
                     /collection_date="2014-12-19"
                     /collected_by="CSMUH"
     gene            complement(join(4798..4938,1..9))
                     /locus_tag="FDK26_RS29540"
                     /old_locus_tag="FDK26_29315"
     CDS             complement(join(4798..4938,1..9))
                     /locus_tag="FDK26_RS29540"
                     /old_locus_tag="FDK26_29315"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001323484.1"
                     /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_264858245.1"
                     /translation="MDEWESAFGEWRKMSGLMQRENAALSERVSGLSRQVQSLSEQLRR
                     LSTG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(<11..>64)
                     /locus_tag="FDK26_RS30140"
                     /pseudo=""
     CDS             complement(<11..>64)
                     /locus_tag="FDK26_RS30140"
                     /inference="COORDINATES: protein motif:HMM:NF016769.3"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus and C-terminus; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     gene            complement(82..579)
                     /locus_tag="FDK26_RS29545"
                     /old_locus_tag="FDK26_29320"
     CDS             complement(82..579)
                     /locus_tag="FDK26_RS29545"
                     /old_locus_tag="FDK26_29320"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020325392.1"
                     /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_015328238.1"
                     /translation="MSSLLTASRDFEEKSKAQQQLTEERLKAAFSKHENVVKSELNASA
                     KRINDAISAHEQGMNAAMQSNRLSVLRMVGRTWLTITMVSGLLFASLSGVLWYQGNRIA
                     ANLAEIRQQRDTLSKLHMQTWGVTYLENRNGRFLVLPEGMKAETGRTVDNKTRNAVKLV
                     RE"
                     /name="MbeB family mobilization protein"
     gene            complement(<620..1318)
                     /locus_tag="FDK26_RS30220"
                     /old_locus_tag="FDK26_29325"
                     /pseudo=""
     CDS             complement(<620..1318)
                     /locus_tag="FDK26_RS30220"
                     /old_locus_tag="FDK26_29325"
                     /inference="COORDINATES: protein motif:HMM:NF015397.3"
                     /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            complement(1257..1598)
                     /locus_tag="FDK26_RS29555"
                     /old_locus_tag="FDK26_29330"
     CDS             complement(1257..1598)
                     /locus_tag="FDK26_RS29555"
                     /old_locus_tag="FDK26_29330"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006122514.1"
                     /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_074181101.1"
                     /translation="MADKRNKMLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPTR
                     AGRLPSISPALLRQLAGMGNNLNQIARKVNAGGAGHDRVQIVAALMAIDAGLERLRHAV
                     QEKGPDDDC"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2222..2335
                     /locus_tag="FDK26_RS30225"
                     /old_locus_tag="FDK26_29345"
     CDS             2222..2335
                     /locus_tag="FDK26_RS30225"
                     /old_locus_tag="FDK26_29345"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /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            2602..3207
                     /locus_tag="FDK26_RS29565"
                     /old_locus_tag="FDK26_29350"
     CDS             2602..3207
                     /locus_tag="FDK26_RS29565"
                     /old_locus_tag="FDK26_29350"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006338602.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_047715645.1"
                     /translation="MQDRSVVNRQGFNPEIDLPYSLRISDFEHAMEDIYDFFHDVNNLL
                     SNKGLHRLDDMMRPAAMSGLISDMITASLAKFSRSLVENKHFNGHPDLVVRGRYPNDSI
                     SSGEEGIEIKTTRKNGGAVDTHGARSQWMCVFVYNVDNETEPASDRKSMKFTEVYLCHV
                     DENDFRRNDRGALGTRTATLHKEGLKKLRESWVYKDLV"
                     /name="hypothetical protein"
     gene            complement(3204..4322)
                     /locus_tag="FDK26_RS29570"
                     /old_locus_tag="FDK26_29355"
     CDS             complement(3204..4322)
                     /locus_tag="FDK26_RS29570"
                     /old_locus_tag="FDK26_29355"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012402750.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0008170 - N-methyltransferase activity [Evidence IEA]"
                     /GO_process="GO:0006306 - DNA methylation [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA methyltransferase"
                     /protein_id="WP_117064210.1"
                     /translation="MSLAPGVVRDSIIECFLRLGREASIEEITKAVYLKIGEISKSSVR
                     SYLSLNTPGLFERVDRGVYRLNGDAGITPSLDLTSSPKTVGKSTIFFDDAIEWLKRQKD
                     NSIHAVVTDPPYGLVEYTKQQTEKLRAGKGGIWRKPPSFDGHKRAPLPRFTVLREEDLR
                     NISLFFKELSSQVERVVVPGGNIVIASNPLLSHIVADSMSTSGLELRGYIVRQVMTMRG
                     GDRPKNAHDEFGDVSVMPRSQWEPWIVLRKPLDGRVQDNLRKWKTGGFRRISADRPFGD
                     VIKSHPTPAHEKKIAPHPSLKPQNFMRQLVRAVLPLGEGIILDPFMGGGSTLAAANHIG
                     YESIGVEIDREFFDLAEKAIPALSALPSKENN"
                     /name="DNA methyltransferase"
     Typing          complement(1686..1765)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="96.296"
                     /coverage="93.0"
                     /evalue="6.62e-29"
     Typing          1816..2335
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.587"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(3..1267)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(1264..1577)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.509"
                     /coverage="99.0"
                     /evalue="8.420000000000001e-58"
ORIGIN
        1 ctcgtccagc cttctcgagt agtcctgctg tagctgctct aacgcgctca gcaattgttt
       61 ttccagttcc gtcattctgc tctactcccg taccagcttc accgcgttcc gcgtcttgtt
      121 gtccaccgtc cggcccgttt cggctttcat cccctccggc agcaccagaa accgtccgtt
      181 gcggttctcc agataggtca cgccccacgt ctgcatgtgc agtttcgaca gcgtatctct
      241 ctgctgcctg atttccgcca ggttcgccgc tatccggttc ccctggtacc acagcacccc
      301 gctcaggctg gcgaacagca gccctgacac catggtgatg gtcagccacg tccgcccgac
      361 cattcgcagc acgctcagcc ggttcgactg catcgccgcg ttcatcccct gttcgtgggc
      421 gctgatggcg tcgttgattc tcttcgcgct tgcgttcagt tccgatttga caacgttctc
      481 gtgcttgctg aatgcggctt tcagcctctc ttcggtaagc tgctgctgtg ctttcgattt
      541 ctcctcgaag tccctcgagg ccgttaaaag actgctcata aatggctccc ctcagtcgga
      601 tatttcgccc cccgtccggg tcggcaatgc tgatactgtt ttttgtggtt ctgaccacct
      661 caaaaccggc cgctgtgagc gcccctgtga cgtcatcacg cgttttcagc tctcctgatg
      721 aggctaacat cagcaaaccc cgtgtaatcg tctccgcggc ttcctgcttc gtttctggca
      781 gtcctgacgg cgtgaccagc gcccgccggt tctccgggtc gttcggatca tgcagcccca
      841 gcctgccgtt gaccactgtc tgccacgcat cgatgcgcgg ccggtcggca cgatcgtaat
      901 acggctggag gcgtttcccc gtcagtaatt cggtattggg gatcagaaaa ttcagctcaa
      961 gacgaccctt gtctgcgtgt tccacccaca gaatgctgta ctgatcttta tcgagtccgg
     1021 gcatcagaac ccgctcaaag ctggccatca gtttttcacg ctgacccggc ggcaggtccg
     1081 cctccgcgaa tgacagcacc ccggaggtat attttttcac atacggcgac gcatcaatca
     1141 gctcccggac ttcttccggc ttcccctgca ggacgctggc accttcacgc tgccggtctt
     1201 tacccagaag atagtccacc ggaccggcgc ccccgccgcg accccgggga tggaatttaa
     1261 caatcatcgt ccggcccttt ttcctgtacg gcatgccgca accgttccag accggcatcg
     1321 atcgccatca gcgctgccac gatctgcacc cggtcatgac cggcaccacc ggcgttcact
     1381 ttccgggcga tctggttcag gttattgccc atgccggcaa gctgacgcag cagcgccggc
     1441 gaaatcgagg ggagcctgcc ggcgcgtgtc ggtttctcat caaggcaggt ctggcgcatc
     1501 cacgccgcca gttgttttcc gtcgcaccgc tcaagcaacc gccggtgttc gtcttccgtc
     1561 acccacatcg tgagcatctt gttgcgttta tctgccagaa tcgcctcctg ataaccccgt
     1621 gacggacggg aaagcctttc ccggtcggcg cggggttgga caagccgcag gcgcgtcagt
     1681 ggtttttagc gggtttcggg gcgcagccct gaaccagtca cgtagcgcta gcggagtgta
     1741 tactggctta ctatagtggc atcggtatgg gtatcagcga aagtgctata tatggcaggg
     1801 atgacatgca gcgacggtgc gtaaggcaga taatggtagt gccgggggta tgacgcctcc
     1861 tcgctcactc ggtcgctgcg ctcctgccgt gagactgcgg cgggcgttac cagctcacga
     1921 gtgacgagag aaagaaatag cgctcacgtc aggaaggcca gaaaaaagga tgcggcgttg
     1981 ccgtttttcc ataggctccg cccccctgac gagcatcaca gaatctgatg ctcaaatcag
     2041 tggtggcgaa acccgacagg actataaaga tcccaggcgt ttccccctgg tagctccctc
     2101 gtgcgctctc ctgttcctgc ctttcggttt accggtgtca ttccgctgtt atggccgcgt
     2161 ttgtctcatt ccacgcctga cactcagttc cgggtaggca gttcgctcca agctggactg
     2221 tatgcacgaa ccccccgttc agtccgactg ctgcgcctta tccggtaact atcgtcttga
     2281 gtccaacccg gaaagacatg caaaagcgcc actggcagca gccactggta actgaaaagg
     2341 tggatttaga tattgagagt tcttgaagtg gtgacctgac tgcggctaca ctagaaggac
     2401 agtatttggt atctgcgctc caccaagcca gttacctggt taagcagttc cccaactgac
     2461 ttaaccttcg attaaaccgc ctccccaggc ggttttttcg tttcaagagg ctacgcccaa
     2521 acgacaatga tcgtcaagga tcttcttggt aagatatgac aaagagcttt cgaactttta
     2581 tatcttattc aaggaactaa gatgcaagac aggtcagtag ttaatcgaca gggatttaac
     2641 ccagagatcg atctgccgta ttcgctaagg attagtgatt ttgagcacgc gatggaagat
     2701 atttatgact tcttccatga tgtgaacaac ttactatcaa acaaaggttt gcataggctt
     2761 gatgacatga tgagaccagc agctatgtct ggcctcatat cagatatgat cacagcttcc
     2821 ctcgctaaat tttcaagatc gcttgttgaa aacaagcatt tcaatggaca tccagaccta
     2881 gttgttaggg gcaggtatcc gaatgacagt atctcctcag gagaagaagg cattgaaata
     2941 aaaaccaccc ggaaaaatgg gggggcagtc gatactcacg gggccagatc tcaatggatg
     3001 tgcgtatttg tctacaatgt cgataatgag accgaaccgg cctcagacag aaagtcgatg
     3061 aaatttaccg aggtatatct ttgccacgtt gatgaaaatg acttccgtcg taatgatcgt
     3121 ggtgcattag gaaccagaac agcaaccctt cacaaagaag ggttgaagaa gctcagagaa
     3181 agctgggttt acaaggactt agtttagtta ttttccttgc taggaagagc tgatagcgcg
     3241 gggatagcct tctccgccaa atcaaagaac tctcggtcta tttcaactcc aatgctctca
     3301 taacctatat gatttgcagc tgccaatgtg gagcctcccc ccataaatgg atcgagaata
     3361 atcccctctc ccaaaggaag cactgccctc actaattgtc gcatgaaatt ttgcggcttt
     3421 aatgagggat gtggtgctat ctttttttcg tgtgctggcg tcggatgaga tttgatgacg
     3481 tcgccaaatg gcctatcagc tgaaatcctc ctgaatccac ctgttttcca ctttcttaga
     3541 ttatcctgaa cccttccatc tagaggcttt ctcaacacta tccatggttc ccattgagaa
     3601 cgaggcatga cagaaacatc tccaaattca tcatgggcgt ttttgggtct atccccacct
     3661 ctcatggtca taacctgacg tacaatgtaa cctcgtagct ctaagccaga cgtagacata
     3721 gagtccgcga ctatatggga tagtagaggg ttggatgcga taactatatt cccgccagga
     3781 acaaccaccc tttcgacttg cgaggatagt tctttgaaaa ataatgatat atttctgagg
     3841 tcttcttccc gcaaaaccgt aaagcgaggt aatggcgctc gcttatgtcc atcaaaggaa
     3901 ggtggctttc tccaaatacc acctttccct gcccttagtt tctcagtctg ttgttttgta
     3961 tactcgacta atccgtaagg aggatcagtt acaactgcat gaattgaatt atctttttgt
     4021 ctttttaacc attcaattgc atcgtcaaaa aaaatcgtcg atttcccaac cgtcttaggt
     4081 gaagacgtca aatctaggga gggagtaata ccagcatcac catttaagcg atagacacct
     4141 cggtctactc gctcgaacag acctggggta tttaaactca gatatgagcg aacagaagac
     4201 tttgaaattt ctccaatttt taaataaaca gcttttgtta tctcctcaat agaagcttct
     4261 cttccaagcc ttaaaaaaca ttcaattatc gagtcacgaa caacaccagg agccaaagac
     4321 atgtttataa atccagtatt tttatataaa ataataatac taactagacg tcaggacgtc
     4381 aatttagttt aaaagagacg tcaaaaaagt atacattaac ttttttttta ccataacatc
     4441 ccttacccgc accgcgccgg aggccctcag ggcgtttctg atggctgacg ggcaaaaggt
     4501 ggtggcaagt acaccgaaaa ccaccagaaa cgcacctgat ttattttacg catatgcatc
     4561 acttattcac atcactgcat agccggtgat ttcggttaaa aaagactctc tgtgtgctga
     4621 aatcgcagaa aatggccatg atccccgtca cgctcaggcc acctgagacg ggcgtttatc
     4681 agtctccata ctccctgtca ccatgagata atgtgcgttg ccgttccggt accagatctg
     4741 ctgtcttctc tggttccttt tccgttcttt gcccgtatcg ctgttgctca atctcattca
     4801 gcctgtcgat aaccggcgca gctgctcgct caaactctgc acctgcctgc tcaagcccga
     4861 cacgcgctcg ctcagcgccg cgttctcccg ttgcataaga ccagacatct tccgccattc
     4921 cccgaaggcg ctctccca
//
