LOCUS       CP052319                6222 bp    DNA     circular BCT 04-MAY-2020
DEFINITION  Klebsiella pneumoniae strain E16KP0093 plasmid pE16KP0093-4,
            complete sequence.
ACCESSION   CP052319
VERSION     CP052319.1
DBLINK      BioProject: PRJNA625837
            BioSample: SAMN14609922
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  JOURNAL   Unpublished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 20:48:48
            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)                     :: 5,587
            CDSs (total)                      :: 5,460
            Genes (coding)                    :: 5,327
            CDSs (with protein)               :: 5,327
            Genes (RNA)                       :: 127
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 16
            Pseudo Genes (total)              :: 133
            CDSs (without protein)            :: 133
            Pseudo Genes (ambiguous residues) :: 0 of 133
            Pseudo Genes (frameshifted)       :: 66 of 133
            Pseudo Genes (incomplete)         :: 64 of 133
            Pseudo Genes (internal stop)      :: 27 of 133
            Pseudo Genes (multiple problems)  :: 22 of 133
            ##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="E16KP0093"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pE16KP0093-4"
                     /geo_loc_name="South Korea: Jeonnam"
                     /lat_lon="34.87 N 126.99 E"
                     /collection_date="2016"
                     /collected_by="Kor-GLASS"
     gene            complement(620..1060)
                     /locus_tag="HJX34_27895"
     CDS             complement(620..1060)
                     /locus_tag="HJX34_27895"
                     /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="entry exclusion protein 1"
                     /protein_id="QJK20525.1"
                     /translation="MAWHTVQETLKLTGKSRSQLYRDMAKGLVSYRTGKNDRREFETSE
                     LIRAYGELRTSETPKRHKEGHSKSVVSQAENAQLDVIQQKLDALQQTVTLMLEDKMARE
                     AENRLRNEEREQLQAEISRLADALAQEKKRGFWSRLFRSGSE"
                     /name="entry exclusion protein 1"
     gene            1278..1667
                     /locus_tag="HJX34_27900"
     CDS             1278..1667
                     /locus_tag="HJX34_27900"
                     /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="QJK20526.1"
                     /translation="MSTELNSGTVGGFGHMGPNDPYNDGHSGSGSSGGSFNGGGNGGHD
                     NSSGSSYTASFGLITGRHPITVPGTKNINSVDLSAVINNIIHHEGARNNMYLDTANNVR
                     VGVTGTGWQCLATAGISAEGKRTFR"
                     /name="hypothetical protein"
     gene            1711..2250
                     /locus_tag="HJX34_27905"
     CDS             1711..2250
                     /locus_tag="HJX34_27905"
                     /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="QJK20527.1"
                     /translation="MPHVAARTASRDRDTGRYQSHRPEQTLLYQIVDEYYPAFAALMAE
                     QGKELPGYVQREFEEFLQCGRLEHGFLRVRCESCHAEHLVAFSCKRRGFCPSCGARRMA
                     ESAALLVDEVLPEQPMRQWVLSFPFQLRFLFGVVCGKGRNPTLRLWPAIFSGEIDVFPG
                     DRRSRLISSMTSVAPA"
                     /name="IS91 family transposase"
     gene            complement(2222..3058)
                     /locus_tag="HJX34_27910"
     CDS             complement(2222..3058)
                     /locus_tag="HJX34_27910"
                     /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="QJK20533.1"
                     /translation="MFMPPVFPAHWHVSQPVLIADTFSSLVWKVSLPDGTPAIVKGLKP
                     IEDIADELRGADYLVWRNGRGAVRLLGRENNLMLLEYAGERMLSHIVAEHGDYQATEIA
                     AELMAKLYAASEEPLPSALLPIRDRFAALFQRARDDQNAGCQTDYVHAAIIADQMMSNA
                     SELRGLHGDLHHENIMFSSRGWLVIDPVGLVGEVGFGAANMFYDPADRDDLCLDPRRIA
                     QMADAFSRALDVDPRRLLDQAYAYGCLSAAWNADGEEEQRDLAIAAAIKQVRQTSY"
                     /name="aminoglycoside O-phosphotransferase APH(6)-Id"
     gene            complement(3058..3861)
                     /gene="aph(3'')-Ib"
                     /locus_tag="HJX34_27915"
     ARG             complement(3062..3861)
                     /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(3922..4737)
                     /gene="sul2"
                     /locus_tag="HJX34_27920"
     ARG             complement(3926..4737)
                     /name="sul2"
                     /gene="sul2"
                     /gene_name="sulfonamide-resistant dihydropteroate synthase
                     Sul2"
                     /tool="amrfinderplus"
                     /drug_class="SULFONAMIDE"
                     /identity="100.0"
                     /coverage="100.0"
     gene            complement(5197..5355)
                     /locus_tag="HJX34_27925"
     CDS             complement(5197..5355)
                     /locus_tag="HJX34_27925"
                     /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="QJK20530.1"
                     /translation="MHEPPVQSDRCALSGNYQLESNPERHDKTPLAAAISNRSAREDRL
                     RGLEVEA"
                     /name="replication initiation protein"
     gene            complement(5397..5801)
                     /locus_tag="HJX34_27930"
     CDS             complement(5397..5801)
                     /locus_tag="HJX34_27930"
                     /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="QJK20531.1"
                     /translation="MLHVAGEKRQHRRVSRICDTGDIPLPRSLTRYARSFGCGERYRLT
                     DGDGNFLEDTRKTLSKEEIRPRRSRFSIGSAPLTSIAKSDAQISGGETRQDYKDPRRFP
                     LVAPSCALLFLPFGLPVSFRCYGRGFSFHA"
                     /name="plasmid replication initiation protein"
     gene            5926..6075
                     /locus_tag="HJX34_27935"
     CDS             5926..6075
                     /locus_tag="HJX34_27935"
                     /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="QJK20532.1"
                     /translation="MPSEYDEQLDSTDTQLPGEYDLFDLMAQVTEENLHAPVDFGSPVG
                     REAL"
                     /name="hypothetical protein"
     ARG             complement(2226..3058)
                     /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          5718..5891
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="99.429"
                     /coverage="100.0"
                     /evalue="1.19e-84"
     Typing          complement(5189..5794)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.593"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 atgaaaatcg cggctgcgtt aggtgtatga ccattttgag gttgaaaaat aatcaaccat
       61 ggcgggtgat ttacgcaggt taaggggaga tcgtgacaaa aaaagcgttc ctcactgtat
      121 cgttcatgcc tgcatgaacg ggttattctt cctgactaca gaattacatc gctccttcag
      181 ttcatacatc acttttacat cacttttaca tcacttttac atcacttata catcactttt
      241 acatcattcc ttcagctcat acgtcacttt catcctctgt gccatttgta catcaccccc
      301 ttcctgaacg tgctgacagc gggttttccg gctgcgccgg caacgcttca cggccacgca
      361 ataaattgcg tccccgttca ccgttttcgg atgggaagaa cgccggaaac aggacttacc
      421 ccggctgaat ggtgtgaatt tccgcgctat gcacttgtgc gcatactcat gcatgccgta
      481 aaaacagagc ctgcgcgttt ctggcgggtt ttcgggtggt ttgttgcctg ttttaccggt
      541 ttcccgtcag aaacgccctg agggcctctc aggcggtgct gataacagat gttatggtaa
      601 atcagagtca cctgcactgt tactctgaac cggagcgaaa cagccgcgac cagaatcccc
      661 gctttttttc ctgtgccagc gcgtcagcca gacggctaat ttcggcctgt agttgttccc
      721 tctcctcatt tcgcaggcgg ttttctgctt cccgcgccat cttgtcttca agcattaggg
      781 taacagtctg ctgcagagcg tccagtttct gctgaatgac gtctagctga gcattttccg
      841 cctggctaac gacagatttg gagtgtccct ccttgtgcct ttttggtgtc tcagaagtgc
      901 gcagctcgcc ataggcccga atcagttcac tggtctcgaa ctcccggcga tcattttttc
      961 ctgtgcgata gctgacaagg cctttagcca tgtcacgata taattgcgag cgcgactttc
     1021 ctgttaattt cagtgtctct tgaactgtgt gccatgccat aaaagtgaca gtgtctcctg
     1081 tgtgtaccgt attgtaacag cagaacatat tactgtttta acacaaaagg tctgaggctg
     1141 cccgtgaggc gtgaaaaata cacaaaaaac ctgttgacgg tgtggttttg acgggcgtag
     1201 tatttcgaat actgtatata aacacattgt tataaataca gtttttgctg tttttaaaag
     1261 tcaaagagga taattttatg agtacagagt taaatagcgg tactgtcggt ggttttggtc
     1321 acatgggacc aaatgacccc tacaatgatg gtcatagcgg ctctggaagt tcgggaggta
     1381 gttttaacgg tggtggtaat ggtggccatg ataatagtag tggttcatct tatactgcat
     1441 cctttggtct catcactggc cgacacccga taactgtccc aggtacgaag aatattaatt
     1501 ctgtcgatct ttctgctgtc attaataaca ttatacatca tgaaggtgca cgcaataaca
     1561 tgtacctaga tactgcgaac aatgtaagag tgggagtgac gggcactggc tggcaatgtc
     1621 tagcaacggc aggcatttcg gctgagggta aaagaacttt ccgctaagcg atagactgta
     1681 tgtaaacaca gtattgcaag gacgcggaac atgcctcatg tggcggccag gacggccagc
     1741 cgggatcggg atactggtcg ttaccagagc caccgacccg agcaaaccct tctctatcag
     1801 atcgttgacg agtattaccc ggcattcgct gcgcttatgg cagagcaggg aaaggaattg
     1861 ccgggctatg tgcaacggga atttgaagaa tttctccaat gcgggcggct ggagcatggc
     1921 tttctacggg ttcgctgcga gtcttgccac gccgagcacc tggtcgcttt cagctgtaag
     1981 cgtcgcggtt tctgcccgag ctgtggggcg cggcggatgg ccgaaagtgc cgccttgctg
     2041 gttgatgaag tactgcctga acaacccatg cgtcagtggg tgttgagctt cccgtttcag
     2101 ctgcgtttcc tgtttggggt cgtttgcggg aaggggcgga atcctacgct aaggctttgg
     2161 ccagcgatat tctccggtga gattgatgtg ttcccagggg ataggagaag tcgcttgata
     2221 tctagtatga cgtctgtcgc acctgcttga tcgcggccgc gatagctaga tcgcgttgct
     2281 cctcttctcc atccgcgttc caagctgcgg aaaggcaccc ataagcgtac gcctggtcga
     2341 gcaggcgacg cggatcgacg tccagcgcac gagagaatgc gtccgccatc tgtgcaatgc
     2401 gtctaggatc gagacaaagg tcgtctctgt cagccggatc gtagaacata ttggcggcgc
     2461 caaagcccac ttcaccgacc agaccgacgg gatctatcac cagccagccg cgactggaga
     2521 acatgatgtt ttcatgatgc agatcgccat gtagcccacg cagttccgag gcattgctca
     2581 tcatttgatc ggctataatc gccgcgtgga cgtagtcagt ttgacaacct gcgttttgat
     2641 catcgcgcgc ccgctgaaac aaagctgcaa agcgatcccg gatcgggaga agggcagaag
     2701 gcaggggttc ctcagatgcg gcatacagct tcgccattag ttccgctgca atttcggtcg
     2761 cctggtagtc gccgtgctcg gcaacgatgt gagagagcat tcgctccccg gcatattcga
     2821 gcaacatcag attgttctca cgaccgagca accggactgc tcccctccca ttgcgccata
     2881 ccagatagtc ggccccgcgc agttcatcag caatgtcttc tataggtttc aatcccttga
     2941 cgattgcagg agtcccgtct ggcaatgaaa ctttccaaac gaggctggaa aaggtgtccg
     3001 caatgagaac aggttgcgaa acgtgccaat gagcaggaaa aacaggcggc atgaacatca
     3061 accccaagtc agagggtcca atcgcagata gaaggcaagg cgttcgcggt cgggggcttc
     3121 gatccccaat acattgaata ggacagcgaa ggcgcgctct gcttcatctg gcgctgccca
     3181 gttctcttcg gcgttagcaa tcatgagtgc caaatcggca tagcgatctg ctgttccgag
     3241 ccgcccaagg tcgatcagac ccgtgcattg aagagtttta gggtccacca tgaagttcgg
     3301 catgcaggga tcaccatggc aaacaaccat atcggtgcgc tcttggtcga gccgcaccgg
     3361 tagctctcgt tcgacacgag ccaaaagatc gagctgcggc gtactcttgt cctcgtccgg
     3421 taagaagtcg ggattgacgg cattgcggga caccacatca acggcgcgtc cgaacattcg
     3481 cgacagcctg cgctcaaacg gacattgatc aaccgatagg ctgtgaacag cgccaagttg
     3541 ctgccccatt gacggccacg ctttgagcaa atccgctcca gacagatcag ccgccggtac
     3601 tcccggaatt gccgttatca ccaagcatgc accctcctgt tcctcctgcc agttgatgac
     3661 ctcggggcaa gccacacctc gacctttgag ccaaatgagg cggtcacgct ctccagcgag
     3721 ctcaccgcgg cgggaagcag gtgcgatttt cgcgaaggca tgcccgtcac cacgtcgaaa
     3781 aacaaaatca ccagattctc cgcctctgac aggcaaccag tcagaatgcg attcaccaaa
     3841 aaaaatatta gttcgattca atggaggttc cttcagtttt ctgatgaagc gcgaatatag
     3901 agaaatatcc cgaatgtgca gttaacgaat tcttgcggtt tctttcagcg ccgccaatac
     3961 cgccagcccg tcgcgcaagg ggcgcggctc gtgtgtgcgg atgaagtcag ctccacctgc
     4021 ggcggcggca agctctgcag cgagtgtcgc ggccccgaca tcccccggac cacggcctgt
     4081 gagcgcgcgc agaaaggatt tgcgcgaaac agacagaagc accggcaaat cgaagcgcag
     4141 ccgcaattca tcgaaccgcg ccagcaccga gagcgaggtt tcgggagcag cccccagaaa
     4201 aaaacccatg ccgggatcaa ggacaaggcg gttgcgtttg ataccggcac ccgtcagcgc
     4261 cgcgatgcgc gcgtcaaaga acgccgcaat gtgatccatg atgtcgccag cgggtgcctc
     4321 gcgccgatct gcctgcccgt cttgcaccga atgcataacg acgagtttgg cagatgattt
     4381 cgccaattgc ggatagaacg cagcgtctgg aaaaccgcga atatcattga gataggccac
     4441 accacgcgac aaggcatagg cttgcgtcgc gggttgataa ctgtcgagcg agacgggaat
     4501 gccatctgcc ttgagcgcgt ccagcaccgg cgcgatacgc gcgatttctg tgtcggacga
     4561 aacaggcgcg gcgtcgggat tgctggatgc cggaccgagg tcgatcacat ctgccccctc
     4621 ggccatcagc ttacgcgcct gcgcaatggc tgcgtctggc gccagatacc ggcctccatc
     4681 ggagaaactg tccgaggtta tgttgacgat gccgaaaatg atgagcgatt tattcatggg
     4741 ggcttctata ataataataa tcgagcatga gtctcatacg gatgctcggg tcgaaaggga
     4801 atccccaggc gagtaacctg tttgcggtga tccgtttcat gatgatgtat ctgtagcatt
     4861 ttggaaataa atatatcatc tctcaataag tagatatatt tatctttttt gcttctttgg
     4921 tgctgcaagt caccaatacg agggaaacct gttacggagc ggtttaaccg taatcaacag
     4981 tgactggtgt catgttcgga agattaattg atagtaatct acaaaggatc ttcttgagat
     5041 ccttttcaat gaatcgtaat ctcttgctct gtaaacgaaa aaaccgcctg gggaggcggt
     5101 ttgttcgaag gttaagtcag ttggggaact gcttaacccg gtaacagggt tcacgagacc
     5161 gccattacca aaactgttct ttcagtgtag ccgcagtcag gcctctactt caagacctct
     5221 taatctatct tctcgtgcac tcctgttact aatggctgct gccagtggcg ttttgtcgtg
     5281 tctttccggg ttggactcaa gttgatagtt accggacaag gcgcagcggt cggactgaac
     5341 ggggggttcg tgcatacagt ccagcttgga gcgaactgcc ttcacggaac tgagtgtcag
     5401 gcgtggaatg agaaaccgcg gccataacag cggaatgaca ccggtaaacc gaaaggcagg
     5461 aacaggagag cgcacgaggg agctaccagg gggaaacgcc tgggatcttt atagtcctgt
     5521 cgggtttcgc caccactgat ttgagcgtca gattttgcga tgcttgtcag gggggcggag
     5581 cctatggaaa aacggcttcg ccgtggcctt atctcttctt tgctaagtgt cttcctggta
     5641 tcttccagga aatttccgtc cccgtccgta agccggtacc gctcgccgca gccgaacgac
     5701 cgagcgtagc gagtcagtga gcgaggaagc ggaatatctc ctgtatcgca tattctgctg
     5761 acgcgccggt gctgcctttt ttctcctgcc acatgaagca cttcactgat tttcgcaatc
     5821 gtggcaacat agtaagccag tatacactcc gctagcgcta catgactggt tcagggctgc
     5881 gccccgaaac ccgctaacaa cctctcagct actggatatc accccatgcc atctgaatat
     5941 gatgaacaac tggattcgac tgatacgcag cttcccggcg aatatgacct ttttgattta
     6001 atggcgcagg ttactgaaga gaacctgcat gcccctgtgg attttgggtc gcctgtcggc
     6061 cgggaagcgt tatagctttt tcgcttgccc gcgtacgtgg taatactccg gtattacctt
     6121 ttatttcttt attttcatgt aattacagtg gatttttaat acccgggtat tactcgtgaa
     6181 aacgaaatat tccttttttt tcttttaatt catgcagttg cg
//
