LOCUS       CP052448                6222 bp    DNA     circular BCT 04-MAY-2020
DEFINITION  Klebsiella pneumoniae strain C16KP0098 plasmid pC16KP0098-5,
            complete sequence.
ACCESSION   CP052448
VERSION     CP052448.1
DBLINK      BioProject: PRJNA625837
            BioSample: SAMN14609888
KEYWORDS    .
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 6222)
  AUTHORS   Yoon,E.-J., Gwon,B., Liu,C., Kim,D., Won,D., Park,S.G., Choi,J.R.
            and Jeong,S.H.
  TITLE     Built-in CTX-M extended-spectrum beta-lactamase gene in Klebsiella
            pneumoniae ensuring stable propagation of the multidrug-resistant
            pathogen in clinical settings
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6222)
  AUTHORS   Yoon,E.-J., Gwon,B., Liu,C., Kim,D., Won,D., Park,S.G., Choi,J.R.
            and Jeong,S.H.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-APR-2020) Research Institute of Bacterial Resistance,
            Yonsei University College of Medicine, 211, Eonjuro, Gangnam-Gu,
            Seoul 06273, Korea, Republic of
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SPAdes v. 3.13.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100x
            Sequencing Technology             :: Oxford Nanopore and Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 04/27/2020 21:01:13
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 4.11
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 5,695
            CDSs (total)                      :: 5,570
            Genes (coding)                    :: 5,423
            CDSs (with protein)               :: 5,423
            Genes (RNA)                       :: 125
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 147
            CDSs (without protein)            :: 147
            Pseudo Genes (ambiguous residues) :: 0 of 147
            Pseudo Genes (frameshifted)       :: 64 of 147
            Pseudo Genes (incomplete)         :: 78 of 147
            Pseudo Genes (internal stop)      :: 22 of 147
            Pseudo Genes (multiple problems)  :: 16 of 147
            ##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..6222
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="C16KP0098"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pC16KP0098-5"
                     /geo_loc_name="South Korea: Gangwon"
                     /lat_lon="37.82 N 128.16 E"
                     /collection_date="2016"
                     /collected_by="Kor-GLASS"
     gene            complement(join(6105..6222,1..287))
                     /locus_tag="HJX00_28435"
     CDS             complement(join(6105..6222,1..287))
                     /locus_tag="HJX00_28435"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012579059.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid replication initiation protein"
                     /protein_id="QJL15832.1"
                     /translation="MLHVAGEKRQHRRVSRICDTGDIPLPRSLTRYARSFGCGERYRLT
                     DGDGNFLEDTRKTLSKEEIRPRRSRFSIGSAPLTSIAKSDAQISGGETRQDYKDPRRFP
                     LVAPSCALLFLPFGLPVSFRCYGRGFSFHA"
                     /name="plasmid replication initiation protein"
     gene            412..561
                     /locus_tag="HJX00_28440"
     CDS             412..561
                     /locus_tag="HJX00_28440"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QJL15825.1"
                     /translation="MPSEYDEQLDSTDTQLPGEYDLFDLMAQVTEENLHAPVDFGSPVG
                     REAL"
                     /name="hypothetical protein"
     gene            complement(1328..1768)
                     /locus_tag="HJX00_28445"
     CDS             complement(1328..1768)
                     /locus_tag="HJX00_28445"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008323638.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="entry exclusion protein 1"
                     /protein_id="QJL15826.1"
                     /translation="MAWHTVQETLKLTGKSRSQLYRDMAKGLVSYRTGKNDRREFETSE
                     LIRAYGELRTSETPKRHKEGHSKSVVSQAENAQLDVIQQKLDALQQTVTLMLEDKMARE
                     AENRLRNEEREQLQAEISRLADALAQEKKRGFWSRLFRSGSE"
                     /name="entry exclusion protein 1"
     gene            1986..2375
                     /locus_tag="HJX00_28450"
     CDS             1986..2375
                     /locus_tag="HJX00_28450"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000102614.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QJL15827.1"
                     /translation="MSTELNSGTVGGFGHMGPNDPYNDGHSGSGSSGGSFNGGGNGGHD
                     NSSGSSYTASFGLITGRHPITVPGTKNINSVDLSAVINNIIHHEGARNNMYLDTANNVR
                     VGVTGTGWQCLATAGISAEGKRTFR"
                     /name="hypothetical protein"
     gene            2419..2958
                     /locus_tag="HJX00_28455"
     CDS             2419..2958
                     /locus_tag="HJX00_28455"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001120888.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="IS91 family transposase"
                     /protein_id="QJL15828.1"
                     /translation="MPHVAARTASRDRDTGRYQSHRPEQTLLYQIVDEYYPAFAALMAE
                     QGKELPGYVQREFEEFLQCGRLEHGFLRVRCESCHAEHLVAFSCKRRGFCPSCGARRMA
                     ESAALLVDEVLPEQPMRQWVLSFPFQLRFLFGVVCGKGRNPTLRLWPAIFSGEIDVFPG
                     DRRSRLISSMTSVAPA"
                     /name="IS91 family transposase"
     gene            complement(2930..3766)
                     /locus_tag="HJX00_28460"
     CDS             complement(2930..3766)
                     /locus_tag="HJX00_28460"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000480972.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="aminoglycoside O-phosphotransferase APH(6)-Id"
                     /protein_id="QJL15833.1"
                     /translation="MFMPPVFPAHWHVSQPVLIADTFSSLVWKVSLPDGTPAIVKGLKP
                     IEDIADELRGADYLVWRNGRGAVRLLGRENNLMLLEYAGERMLSHIVAEHGDYQATEIA
                     AELMAKLYAASEEPLPSALLPIRDRFAALFQRARDDQNAGCQTDYVHAAIIADQMMSNA
                     SELRGLHGDLHHENIMFSSRGWLVIDPVGLVGEVGFGAANMFYDPADRDDLCLDPRRIA
                     QMADAFSRALDVDPRRLLDQAYAYGCLSAAWNADGEEEQRDLAIAAAIKQVRQTSY"
                     /name="aminoglycoside O-phosphotransferase APH(6)-Id"
     gene            complement(3766..4569)
                     /gene="aph(3'')-Ib"
                     /locus_tag="HJX00_28465"
     ARG             complement(3770..4569)
                     /name="aph(3'')-Ib"
                     /gene="aph(3'')-Ib"
                     /gene_name="aminoglycoside O-phosphotransferase
                     APH(3'')-Ib"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            complement(4630..5445)
                     /gene="sul2"
                     /locus_tag="HJX00_28470"
     ARG             complement(4634..5445)
                     /name="sul2"
                     /gene="sul2"
                     /gene_name="sulfonamide-resistant dihydropteroate synthase
                     Sul2"
                     /tool="amrfinderplus"
                     /drug_class="SULFONAMIDE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            complement(5905..6063)
                     /locus_tag="HJX00_28475"
     CDS             complement(5905..6063)
                     /locus_tag="HJX00_28475"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001314450.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="QJL15831.1"
                     /translation="MHEPPVQSDRCALSGNYQLESNPERHDKTPLAAAISNRSAREDRL
                     RGLEVEA"
                     /name="replication initiation protein"
     ARG             complement(2934..3766)
                     /name="aph(6)-Id"
                     /gene="aph(6)-Id"
                     /gene_name="aminoglycoside O-phosphotransferase APH(6)-Id"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          204..377
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.429"
                     /coverage="100.0"
                     /evalue="1.19e-84"
     Typing          complement(2..237)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.827"
                     /coverage="99.0"
                     /evalue="2.41e-91"
     Typing          complement(5736..6222)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="83.794"
                     /coverage="95.0"
                     /evalue="6.38e-127"
ORIGIN
        1 tcctgtcggg tttcgccacc actgatttga gcgtcagatt ttgcgatgct tgtcaggggg
       61 gcggagccta tggaaaaacg gcttcgccgt ggccttatct cttctttgct aagtgtcttc
      121 ctggtatctt ccaggaaatt tccgtccccg tccgtaagcc ggtaccgctc gccgcagccg
      181 aacgaccgag cgtagcgagt cagtgagcga ggaagcggaa tatctcctgt atcgcatatt
      241 ctgctgacgc gccggtgctg ccttttttct cctgccacat gaagcacttc actgattttc
      301 gcaatcgtgg caacatagta agccagtata cactccgcta gcgctacatg actggttcag
      361 ggctgcgccc cgaaacccgc taacaacctc tcagctactg gatatcaccc catgccatct
      421 gaatatgatg aacaactgga ttcgactgat acgcagcttc ccggcgaata tgaccttttt
      481 gatttaatgg cgcaggttac tgaagagaac ctgcatgccc ctgtggattt tgggtcgcct
      541 gtcggccggg aagcgttata gctttttcgc ttgcccgcgt acgtggtaat actccggtat
      601 taccttttat ttctttattt tcatgtaatt acagtggatt tttaataccc gggtattact
      661 cgtgaaaacg aaatattcct tttttttctt ttaattcatg cagttgcgat gaaaatcgcg
      721 gctgcgttag gtgtatgacc attttgaggt tgaaaaataa tcaaccatgg cgggtgattt
      781 acgcaggtta aggggagatc gtgacaaaaa aagcgttcct cactgtatcg ttcatgcctg
      841 catgaacggg ttattcttcc tgactacaga attacatcgc tccttcagtt catacatcac
      901 ttttacatca cttttacatc acttttacat cacttataca tcacttttac atcattcctt
      961 cagctcatac gtcactttca tcctctgtgc catttgtaca tcaccccctt cctgaacgtg
     1021 ctgacagcgg gttttccggc tgcgccggca acgcttcacg gccacgcaat aaattgcgtc
     1081 cccgttcacc gttttcggat gggaagaacg ccggaaacag gacttacccc ggctgaatgg
     1141 tgtgaatttc cgcgctatgc acttgtgcgc atactcatgc atgccgtaaa aacagagcct
     1201 gcgcgtttct ggcgggtttt cgggtggttt gttgcctgtt ttaccggttt cccgtcagaa
     1261 acgccctgag ggcctctcag gcggtgctga taacagatgt tatggtaaat cagagtcacc
     1321 tgcactgtta ctctgaaccg gagcgaaaca gccgcgacca gaatccccgc tttttttcct
     1381 gtgccagcgc gtcagccaga cggctaattt cggcctgtag ttgttccctc tcctcatttc
     1441 gcaggcggtt ttctgcttcc cgcgccatct tgtcttcaag cattagggta acagtctgct
     1501 gcagagcgtc cagtttctgc tgaatgacgt ctagctgagc attttccgcc tggctaacga
     1561 cagatttgga gtgtccctcc ttgtgccttt ttggtgtctc agaagtgcgc agctcgccat
     1621 aggcccgaat cagttcactg gtctcgaact cccggcgatc attttttcct gtgcgatagc
     1681 tgacaaggcc tttagccatg tcacgatata attgcgagcg cgactttcct gttaatttca
     1741 gtgtctcttg aactgtgtgc catgccataa aagtgacagt gtctcctgtg tgtaccgtat
     1801 tgtaacagca gaacatatta ctgttttaac acaaaaggtc tgaggctgcc cgtgaggcgt
     1861 gaaaaataca caaaaaacct gttgacggtg tggttttgac gggcgtagta tttcgaatac
     1921 tgtatataaa cacattgtta taaatacagt ttttgctgtt tttaaaagtc aaagaggata
     1981 attttatgag tacagagtta aatagcggta ctgtcggtgg ttttggtcac atgggaccaa
     2041 atgaccccta caatgatggt catagcggct ctggaagttc gggaggtagt tttaacggtg
     2101 gtggtaatgg tggccatgat aatagtagtg gttcatctta tactgcatcc tttggtctca
     2161 tcactggccg acacccgata actgtcccag gtacgaagaa tattaattct gtcgatcttt
     2221 ctgctgtcat taataacatt atacatcatg aaggtgcacg caataacatg tacctagata
     2281 ctgcgaacaa tgtaagagtg ggagtgacgg gcactggctg gcaatgtcta gcaacggcag
     2341 gcatttcggc tgagggtaaa agaactttcc gctaagcgat agactgtatg taaacacagt
     2401 attgcaagga cgcggaacat gcctcatgtg gcggccagga cggccagccg ggatcgggat
     2461 actggtcgtt accagagcca ccgacccgag caaacccttc tctatcagat cgttgacgag
     2521 tattacccgg cattcgctgc gcttatggca gagcagggaa aggaattgcc gggctatgtg
     2581 caacgggaat ttgaagaatt tctccaatgc gggcggctgg agcatggctt tctacgggtt
     2641 cgctgcgagt cttgccacgc cgagcacctg gtcgctttca gctgtaagcg tcgcggtttc
     2701 tgcccgagct gtggggcgcg gcggatggcc gaaagtgccg ccttgctggt tgatgaagta
     2761 ctgcctgaac aacccatgcg tcagtgggtg ttgagcttcc cgtttcagct gcgtttcctg
     2821 tttggggtcg tttgcgggaa ggggcggaat cctacgctaa ggctttggcc agcgatattc
     2881 tccggtgaga ttgatgtgtt cccaggggat aggagaagtc gcttgatatc tagtatgacg
     2941 tctgtcgcac ctgcttgatc gcggccgcga tagctagatc gcgttgctcc tcttctccat
     3001 ccgcgttcca agctgcggaa aggcacccat aagcgtacgc ctggtcgagc aggcgacgcg
     3061 gatcgacgtc cagcgcacga gagaatgcgt ccgccatctg tgcaatgcgt ctaggatcga
     3121 gacaaaggtc gtctctgtca gccggatcgt agaacatatt ggcggcgcca aagcccactt
     3181 caccgaccag accgacggga tctatcacca gccagccgcg actggagaac atgatgtttt
     3241 catgatgcag atcgccatgt agcccacgca gttccgaggc attgctcatc atttgatcgg
     3301 ctataatcgc cgcgtggacg tagtcagttt gacaacctgc gttttgatca tcgcgcgccc
     3361 gctgaaacaa agctgcaaag cgatcccgga tcgggagaag ggcagaaggc aggggttcct
     3421 cagatgcggc atacagcttc gccattagtt ccgctgcaat ttcggtcgcc tggtagtcgc
     3481 cgtgctcggc aacgatgtga gagagcattc gctccccggc atattcgagc aacatcagat
     3541 tgttctcacg accgagcaac cggactgctc ccctcccatt gcgccatacc agatagtcgg
     3601 ccccgcgcag ttcatcagca atgtcttcta taggtttcaa tcccttgacg attgcaggag
     3661 tcccgtctgg caatgaaact ttccaaacga ggctggaaaa ggtgtccgca atgagaacag
     3721 gttgcgaaac gtgccaatga gcaggaaaaa caggcggcat gaacatcaac cccaagtcag
     3781 agggtccaat cgcagataga aggcaaggcg ttcgcggtcg ggggcttcga tccccaatac
     3841 attgaatagg acagcgaagg cgcgctctgc ttcatctggc gctgcccagt tctcttcggc
     3901 gttagcaatc atgagtgcca aatcggcata gcgatctgct gttccgagcc gcccaaggtc
     3961 gatcagaccc gtgcattgaa gagttttagg gtccaccatg aagttcggca tgcagggatc
     4021 accatggcaa acaaccatat cggtgcgctc ttggtcgagc cgcaccggta gctctcgttc
     4081 gacacgagcc aaaagatcga gctgcggcgt actcttgtcc tcgtccggta agaagtcggg
     4141 attgacggca ttgcgggaca ccacatcaac ggcgcgtccg aacattcgcg acagcctgcg
     4201 ctcaaacgga cattgatcaa ccgataggct gtgaacagcg ccaagttgct gccccattga
     4261 cggccacgct ttgagcaaat ccgctccaga cagatcagcc gccggtactc ccggaattgc
     4321 cgttatcacc aagcatgcac cctcctgttc ctcctgccag ttgatgacct cggggcaagc
     4381 cacacctcga cctttgagcc aaatgaggcg gtcacgctct ccagcgagct caccgcggcg
     4441 ggaagcaggt gcgattttcg cgaaggcatg cccgtcacca cgtcgaaaaa caaaatcacc
     4501 agattctccg cctctgacag gcaaccagtc agaatgcgat tcaccaaaaa aaatattagt
     4561 tcgattcaat ggaggttcct tcagttttct gatgaagcgc gaatatagag aaatatcccg
     4621 aatgtgcagt taacgaattc ttgcggtttc tttcagcgcc gccaataccg ccagcccgtc
     4681 gcgcaagggg cgcggctcgt gtgtgcggat gaagtcagct ccacctgcgg cggcggcaag
     4741 ctctgcagcg agtgtcgcgg ccccgacatc ccccggacca cggcctgtga gcgcgcgcag
     4801 aaaggatttg cgcgaaacag acagaagcac cggcaaatcg aagcgcagcc gcaattcatc
     4861 gaaccgcgcc agcaccgaga gcgaggtttc gggagcagcc cccagaaaaa accccatgcc
     4921 gggatcaagg acaaggcggt tgcgtttgat accggcaccc gtcagcgccg cgatgcgcgc
     4981 gtcaaagaac gccgcaatgt gatccatgat gtcgccagcg ggtgcctcgc gccgatctgc
     5041 ctgcccgtct tgcaccgaat gcataacgac gagtttggca gatgatttcg ccaattgcgg
     5101 atagaacgca gcgtctggaa aaccgcgaat atcattgaga taggccacac cacgcgacaa
     5161 ggcataggct tgcgtcgcgg gttgataact gtcgagcgag acgggaatgc catctgcctt
     5221 gagcgcgtcc agcaccggcg cgatacgcgc gatttctgtg tcggacgaaa caggcgcggc
     5281 gtcgggattg ctggatgccg gaccgaggtc gatcacatct gccccctcgg ccatcagctt
     5341 acgcgcctgc gcaatggctg cgtctggcgc cagataccgg cctccatcgg agaaactgtc
     5401 cgaggttatg ttgacgatgc cgaaaatgat gagcgattta ttcatggggg cttctataat
     5461 aataataatc gagcatgagt ctcatacgga tgctcgggtc gaaagggaat ccccaggcga
     5521 gtaacctgtt tgcggtgatc cgtttcatga tgatgtatct gtagcatttt ggaaataaat
     5581 atatcatctc tcaataagta gatatattta tcttttttgc ttctttggtg ctgcaagtca
     5641 ccaatacgag ggaaacctgt tacggagcgg tttaaccgta atcaacagtg actggtgtca
     5701 tgttcggaag attaattgat agtaatctac aaaggatctt cttgagatcc ttttcaatga
     5761 atcgtaatct cttgctctgt aaacgaaaaa accgcctggg gaggcggttt gttcgaaggt
     5821 taagtcagtt ggggaactgc ttaacccggt aacagggttc acgagaccgc cattaccaaa
     5881 actgttcttt cagtgtagcc gcagtcaggc ctctacttca agacctctta atctatcttc
     5941 tcgtgcactc ctgttactaa tggctgctgc cagtggcgtt ttgtcgtgtc tttccgggtt
     6001 ggactcaagt tgatagttac cggacaaggc gcagcggtcg gactgaacgg ggggttcgtg
     6061 catacagtcc agcttggagc gaactgcctt cacggaactg agtgtcaggc gtggaatgag
     6121 aaaccgcggc cataacagcg gaatgacacc ggtaaaccga aaggcaggaa caggagagcg
     6181 cacgagggag ctaccagggg gaaacgcctg ggatctttat ag
//
