LOCUS       CP052549                5010 bp    DNA     circular BCT 04-MAY-2020
DEFINITION  Klebsiella pneumoniae strain B16KP0089 plasmid pB16KP0089-3,
            complete sequence.
ACCESSION   CP052549
VERSION     CP052549.1
DBLINK      BioProject: PRJNA625837
            BioSample: SAMN14609867
KEYWORDS    .
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5010)
  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  JOURNAL   Unpublished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 5010)
  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 22:13:54
            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)                     :: 5,507
            CDSs (total)                      :: 5,385
            Genes (coding)                    :: 5,285
            CDSs (with protein)               :: 5,285
            Genes (RNA)                       :: 122
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 100
            CDSs (without protein)            :: 100
            Pseudo Genes (ambiguous residues) :: 0 of 100
            Pseudo Genes (frameshifted)       :: 47 of 100
            Pseudo Genes (incomplete)         :: 48 of 100
            Pseudo Genes (internal stop)      :: 19 of 100
            Pseudo Genes (multiple problems)  :: 12 of 100
            ##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..5010
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="B16KP0089"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pB16KP0089-3"
                     /geo_loc_name="South Korea: Gyeonggi"
                     /lat_lon="37.66 N 126.77 E"
                     /collection_date="2016"
                     /collected_by="Kor-GLASS"
     gene            complement(join(4882..5010,1..486))
                     /locus_tag="HJW79_27475"
                     /pseudo=""
     CDS             complement(join(4882..5010,1..486))
                     /locus_tag="HJW79_27475"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005400335.1"
                     /note="incomplete; partial on complete genome; missing
                     N-terminus; Derived by automated computational analysis
                     using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="TIR domain-containing protein"
                     /name="TIR domain-containing protein"
     gene            888..1289
                     /locus_tag="HJW79_27480"
     CDS             888..1289
                     /locus_tag="HJW79_27480"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /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="QJM18965.1"
                     /translation="MTRVSISEAARLTGKSRTTLHRLIKTGELSTCSGERNTKMVDISE
                     LLRVFGPFDQPKNEHLTRQVPEQRDTAPADQSEHVIRQLKQQIEHLNILILSKDSHIDS
                     LKQAMLLLENHQAKLTEPPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(2089..2250)
                     /locus_tag="HJW79_27485"
     CDS             complement(2089..2250)
                     /locus_tag="HJW79_27485"
                     /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="QJM18966.1"
                     /translation="MAKHWSGQECPKTGTYGQYHDTDNSYAGSEYDRHVSKGDKFPPSK
                     NNHHFQEK"
                     /name="hypothetical protein"
     gene            2487..2732
                     /locus_tag="HJW79_27490"
     CDS             2487..2732
                     /locus_tag="HJW79_27490"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012848468.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system Phd/YefM family
                     antitoxin"
                     /protein_id="QJM18970.1"
                     /translation="MHAINFTDARKHFAETMKRVTDDAEPVRVMRRDAPDIVMIDAGEY
                     EALIETVYLFSNPANAEHINESMKQAERGEFVEVEY"
                     /name="type II toxin-antitoxin system Phd/YefM family
                     antitoxin"
     gene            2713..2988
                     /locus_tag="HJW79_27495"
     CDS             2713..2988
                     /locus_tag="HJW79_27495"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017412855.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Txe/YoeB family addiction module toxin"
                     /protein_id="QJM18967.1"
                     /translation="MSKWNIKFTRNGADDLNYWRDTDKKKFERIRQLLLSIEADPLTGI
                     GKPERLRHHKDPALYSRRIDQSHRLVYSIQNGEIIIYAARYHYGDK"
                     /name="Txe/YoeB family addiction module toxin"
     gene            3236..4141
                     /locus_tag="HJW79_27500"
     CDS             3236..4141
                     /locus_tag="HJW79_27500"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001697689.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replicase"
                     /protein_id="QJM18968.1"
                     /translation="MHNAALELFNERLPHKPYFSDDLHFGVRIAGKERAILAKYIQFNQ
                     PHAMFWLGFDVDRAGSSIDWSDRNAPAPTLTITNPENGHAHLLYALENSIRTAPDGKIK
                     PLRYAASVENALRKKLEADAGYSGLICKNPNHNHWKIAVWQPKLYTLDWLADFLDLNTG
                     NDKEIVADYGLGRNCTLFDKTRKWAYRAIRQGWPEYEQWLQACYERACAYNLQFARPLD
                     ENEVRGIAKSIAKWTSNKFSPEEFSKFVDITHSSEIQSKRGKKSGQSRRKGSLEEIKPW
                     VAMGISRRKYFYIKKNGEIR"
                     /name="replicase"
     gene            4138..4845
                     /locus_tag="HJW79_27505"
     CDS             4138..4845
                     /locus_tag="HJW79_27505"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001258875.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QJM18969.1"
                     /translation="MKTFVTLWTIVFLAFIAVMCTVDISNYIPSVYTVFSKNRPLVTGA
                     LSILLISVFIWLMVSLYLLKKYSVKVEKLSLGGVNILFNESATLYKKSVKNHLDSKRAI
                     FKLRKNVDAFDEVISSYYQTYQFIRDEMKILNPKKDREIYDFSNEMLMVLNRFLTNYQN
                     NYKRWYKYISDKDEVVDRVSGDVMRFHATSINKIQMQYYDYERILKGFKDVNRFFVNDV
                     KPKFGINTDKWNW"
                     /name="hypothetical protein"
ORIGIN
        1 tatataagac ccgctcttca tgaagttgtc tattattctt gctggcatat atgggaacct
       61 ttcctcataa gttgagcgct tatcaataga aaaccattca gttacggtag gatgaacttc
      121 tgatttttca ttagttccat gtgttgaacg aatgtacgta gtatttgttg acgggagatt
      181 gacgactaaa attcctgatt ttttgttaat ggtactatct ctcatgctag agtaaagttc
      241 ccaatctacg tgttttctgt tttttgtttc agttccaaca agaaggataa gaactgatgt
      301 atctctaaga tattcatctc ttattatctc tcttattttt tgtggggctt catcttcatc
      361 tatatcacct aatgatactg agcgattcac gaatatttca tgttcctcat tcattttttc
      421 aagtgcgttt ttgtagtact gatcattcgc atggtggtag ctaatgaata ccttatgctt
      481 tcccattttt attgtccttt ttttgtttgt gtgcactcta ttttgcactt gaacctatat
      541 cagataacag ctctctttta gagagctctt tttttctcag ccagcacaca tagggtccct
      601 tcagcaaggt ctcgccatga ctggtttagg gcgggctcgt tgcttcccta aacgccttga
      661 gaagagagct atcacctcac tttattctta cgtaccgctc gccgcagtct tatgaccgaa
      721 cgtagtgagc gaatgcgcga ggaagcggaa agtcatttgt tgcctgcatt ttgcacggtc
      781 actcctgtgt ttcatcgccc ttctgaaaaa cacatcactt ctggaccagt atgtcgtaag
      841 ctggcccctg tttccttgag actgaatgta ttaaaggatg ataactgatg accagagtgt
      901 ctattagtga ggctgcacgg ctgacgggta agagccggac aacgctgcac aggttaatca
      961 aaacaggtga actgtccact tgtagcggtg aacgaaatac aaaaatggtc gatatatcag
     1021 agcttttacg tgttttcgga ccgtttgacc aaccgaagaa tgaacacctt actcgacaag
     1081 tacctgaaca gcgtgataca gcgcctgctg accagagtga acatgtcatt cgtcaactga
     1141 aacagcagat tgaacacctt aacatattga ttttatcgaa ggattcgcac attgacagcc
     1201 tgaaacaggc catgctcctt cttgaaaatc accaggcaaa attaactgaa cccccggcgc
     1261 cgtggtggaa attctggaaa aaatcctgac cccgtcatgc ttcagttttc ctctccggcc
     1321 attccgggga gttcctgaac cttcccgaaa atcgtcagat ctctgaacgc tcctcaccac
     1381 gaaaaatacc cacaccccac gcaaaatttt aattttgcag atttgtattt aatatcagca
     1441 gcttacttta ctgaaatttc gttttttaaa ttttatttat atagatccga ctctatgacg
     1501 agtcgtcata gagtccccgg cgagtcgtca tagagtcggt aacgactcag gcctataaaa
     1561 acaatgagtt aataacgacc cgactctaga tccgactccc cgtttggttg ttttttagac
     1621 gtggcgactc tgggtacgac tctagtgaag agtcgccggg gaatcgtgtg gtgagtcgtc
     1681 cggcgacttg ccataacgtg attgccggcc gtggacgaac cgattcctga acgtgctgaa
     1741 aaccggtttt ccggctgcgc cggcaacgct tcacggccac gcaataaatt gcgtccccgt
     1801 tcaccgtttt cggatgggaa gaacgccgga aacaggactt cccctggctg aatggtgtca
     1861 atttccgcgc tatgcacttg tgcgcatact catgcatgcc gtaaaaacag agcctgcgcg
     1921 tttctggcgg gttttcgggt ggtttgttgc cttgtttacc ggtttcccgt cagaaacgcc
     1981 ctgagggcat ctcaggcggt gctgataacg gatgttatgg taaatcaagt gaatggcagg
     2041 tacaaaaaaa gccccagagg gcttttagtt tagacttctg aagatatttt atttttcttg
     2101 gaagtggtgg ttgtttttgc tcggagggaa cttatcaccc ttgctcacat ggcgatcata
     2161 ttcagaacca gcgtatgagt tgtcggtatc atgatattga ccgtaagtac ctgtttttgg
     2221 acattcttgc ccagaccaat gttttgccat ttacttttcc tttgctcgtt ttaggagcta
     2281 agctcctagc ggtacgaaat tgtgccgcac ttcataaatg taattgcttg aaattatgct
     2341 tcaatgtatt gacttgttgt ttttgtggtt attcgattga gttcacattt tgagctgatt
     2401 tggttgtggg tttttaggga aatatcttta tgtacttatt tgcgtacatg ttctatgcta
     2461 agccccaaca aatgggggtt aacaacatgc atgcaatcaa ttttactgat gcccgtaaac
     2521 attttgccga gacgatgaag cgcgtcactg atgatgctga accggtacgt gtcatgcgcc
     2581 gtgatgcgcc tgatattgtt atgatcgatg cgggagagta tgaggcgcta atcgaaacgg
     2641 tctatctgtt cagcaatccg gcgaacgcag agcatatcaa tgagtcaatg aaacaggcgg
     2701 agcgcggcga atttgtcgaa gtggaatatt aagttcacta ggaatggcgc tgatgacctt
     2761 aactactggc gtgatactga caaaaagaag tttgagcgta tccggcaact gttgctcagc
     2821 atcgaggctg atccgctgac aggtatagga aaacccgaac ggctgcggca ccacaaagat
     2881 ccggcactct actcccgcag gattgatcag agccaccgtc tggtctattc aatccagaac
     2941 ggagaaatca tcatctacgc agcccgttat cactatggtg acaaatagca aaagtcgata
     3001 tagcccgctt gatgcgggct tttcatgcaa ggcgtacaac ggatgttagg gtaagtcgct
     3061 gtcagatcga cacaaaggca aagtcggtgt aacgttagcc tcagaaaaaa caaagccccg
     3121 gaaatcatgt catatcttgg cggatcgcat gataaccagg gctaggtcga aaccttgaaa
     3181 ggatattagc acatgaaccg tgccagacaa cagcccgcca taagcgcagg gcacattgca
     3241 taacgccgca ctcgaacttt tcaacgaacg cttaccacac aagccgtact tttcggacga
     3301 tctgcacttt ggtgtccgta tcgccggtaa ggaacgcgct attctggcga aatatatcca
     3361 gttcaatcag cctcacgcca tgttctggct gggatttgac gttgaccgcg ccggttcctc
     3421 catcgactgg agcgaccgca acgcgcctgc accgacgctg accataacta accccgaaaa
     3481 cggacacgcg cacctgctgt acgcgctgga aaactcgata cgcaccgcgc cggacggcaa
     3541 aataaaaccg ttacgctacg ccgcctccgt ggagaatgcg ctacgtaaaa aattagaggc
     3601 tgacgctgga tattcggggc tcatctgcaa aaatccgaac cacaaccact ggaaaatcgc
     3661 cgtgtggcag ccgaagctct acactctgga ctggctggcc gactttctcg atctgaacac
     3721 agggaatgac aaggaaatcg ttgccgacta cggcttaggc cgtaactgca cgttgttcga
     3781 caaaacccgt aagtgggcat atcgcgccat ccgtcagggc tggcctgagt atgagcagtg
     3841 gctgcaagcc tgctacgaac gcgcttgcgc atacaacctg caatttgcac ggcctctgga
     3901 tgaaaatgag gtaagaggga tagctaagag cattgctaaa tggacatcaa ataaattttc
     3961 acctgaagaa ttcagtaaat ttgttgatat tactcattcc tctgaaattc aatcaaagag
     4021 agggaaaaag tcaggacagt caaggaggaa aggaagccta gaggaaataa aaccttgggt
     4081 agctatggga ataagcaggc ggaagtattt ttatatcaag aaaaatggtg aaataagatg
     4141 aaaaccttcg taactctttg gactatagtt tttttagcat ttattgccgt gatgtgtact
     4201 gttgatatat ctaattacat tccgtctgtt tacacagttt ttagtaagaa tagacctctt
     4261 gtaactggcg ccctttctat tcttttgata tctgttttta tttggctgat ggtatccctc
     4321 tacttactta aaaagtattc ggttaaggtt gagaaactta gccttggtgg agtgaatata
     4381 cttttcaatg agagtgctac actttacaaa aagagtgtaa aaaatcacct agattcaaaa
     4441 agagcaattt tcaaattaag aaaaaacgtt gatgcctttg atgaggttat ttcatcatat
     4501 tatcagactt accaatttat tcgtgatgaa atgaaaatac taaaccctaa aaaagatcgt
     4561 gagatttatg atttcagcaa tgagatgctc atggtgttaa atagatttct aactaactac
     4621 cagaacaact acaagcgttg gtataagtac atatcagaca aagatgaggt tgttgatagg
     4681 gttagcggtg atgtcatgag atttcatgca accagcataa ataaaataca aatgcagtat
     4741 tatgattatg agcgtatttt aaaaggtttt aaagatgtta accggttctt tgttaatgat
     4801 gtgaagccta agtttggaat caatacagat aagtggaact ggtaaattaa aggagtagcc
     4861 aaggctactc cttggatagt actatgaatt atgcattctc atttctctcg acatatcata
     4921 cgttgctttt tctctatcgt tataagtcat gtctattaat tttctgagtg tttctgggtt
     4981 gttttctatt tgattccagt tgaccactga
//
