LOCUS       CP052383                5810 bp    DNA     circular BCT 04-MAY-2020
DEFINITION  Klebsiella pneumoniae strain D16KP0008 plasmid pD16KP0008-2,
            complete sequence.
ACCESSION   CP052383
VERSION     CP052383.1
DBLINK      BioProject: PRJNA625837
            BioSample: SAMN14609906
KEYWORDS    .
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5810)
  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  JOURNAL   Unpublished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 5810)
  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 21:10:01
            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)                     :: 5,431
            CDSs (total)                      :: 5,311
            Genes (coding)                    :: 5,197
            CDSs (with protein)               :: 5,197
            Genes (RNA)                       :: 120
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 114
            CDSs (without protein)            :: 114
            Pseudo Genes (ambiguous residues) :: 0 of 114
            Pseudo Genes (frameshifted)       :: 63 of 114
            Pseudo Genes (incomplete)         :: 51 of 114
            Pseudo Genes (internal stop)      :: 26 of 114
            Pseudo Genes (multiple problems)  :: 23 of 114
            ##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..5810
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="D16KP0008"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pD16KP0008-2"
                     /geo_loc_name="South Korea: Chungbuk"
                     /lat_lon="36.80 N 127.70 E"
                     /collection_date="2016"
                     /collected_by="Kor-GLASS"
     gene            join(5323..5810,1..361)
                     /locus_tag="HJX18_27080"
                     /pseudo=""
     CDS             join(5323..5810,1..361)
                     /locus_tag="HJX18_27080"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000635827.1"
                     /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            747..980
                     /gene="mbeD"
                     /locus_tag="HJX18_27085"
     CDS             747..980
                     /gene="mbeD"
                     /locus_tag="HJX18_27085"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016946053.1"
                     /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="QJL10397.1"
                     /translation="MTEMEKQLLSALESLQTGYEQQQQAWQDSYSSLQRMFEATSQALT
                     HSDRVCQHLSSQVESLRAQVESLSRNVSRLMR"
                     /name="mbeD"
     gene            1145..1477
                     /locus_tag="HJX18_27090"
     CDS             1145..1477
                     /locus_tag="HJX18_27090"
                     /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="QJL10398.1"
                     /translation="MSHAIEFIETPMFTRQIKQIATDEELRELQKTLIESPDKGDLIQK
                     TGGLRKVRMATGNQGKSGSARVIYFLATAEVIYLVMAYPKSTKDSLTDAEKAALKMLTQ
                     QLKDEV"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            1479..1763
                     /locus_tag="HJX18_27095"
     CDS             1479..1763
                     /locus_tag="HJX18_27095"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004088972.1"
                     /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="QJL10399.1"
                     /translation="MSFFDELKASLEEAVEIKNGVREPARVTRYELADVKAIRAQLNVS
                     QSEMAKVLGTSLDTIKSWETGRRNPTGLAAKVLATIQANPKFFQELAAH"
                     /name="helix-turn-helix domain-containing protein"
     gene            1957..2844
                     /locus_tag="HJX18_27100"
     CDS             1957..2844
                     /locus_tag="HJX18_27100"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004088970.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replicase"
                     /protein_id="QJL10400.1"
                     /translation="MHNAALELFNDRLPHKPYFSDDLHFGVRIAGKERAILAKYIQFNQ
                     PHAMFWLGFDVDRAGAAIDWSDRNAPAPTLTITNPDNGHAHLLYALKTSIRTAPDGKMK
                     PLRYAAAVENALRKKLEADAGYSGLICKNPNHGHWKIAVWQPELYTLDWLADFLDLSAA
                     NDKEIVADYGLGRNCTLFDKTRKWAYRAIRQGWPEYDQWLKACYERTCAYNLQFAVPLD
                     ENEVTGIAKSIARWTNKTFTKSSFDEYVLTTHSSEVQSIRGKRSKGGGRPSLNKPWIEL
                     GISRATYFRRKKEK"
                     /name="replicase"
     gene            2844..4781
                     /locus_tag="HJX18_27105"
     CDS             2844..4781
                     /locus_tag="HJX18_27105"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001399645.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF262 domain-containing protein"
                     /protein_id="QJL10402.1"
                     /translation="MGIEQKSVSACLQQKFNLPTYQREYKWGITQLQDLLSDIQHTFLS
                     QWDASHGRNHALSYKEYFLGSIITAPGVNGSKIIIDGQQRVTTLTLVLCYFHRYSLLNP
                     NLDISPVDINIRRKLAGVNSFNLDVSGARESLLNILMGDDIDDISFCSSVDSIPNKDTG
                     TIKMWDQYQKIGDLIDPEILSNNLMPNFIDYLTERVYLYQIIVDDESDGHKVFVTMNDR
                     GLKLTPIDLLKGFLLSGVSVPKQNRQAHEAWQNSVSELNKLSYDESSLFIKNWLRSKYA
                     KTNRAKRTNEEPKDFDVIAANYHRWVIEKKDELSLKNNDDYFEFITKDFVFYSKVYLKI
                     RELECKLNMEFPHVYYNGSRDLTVQAMIIMSAIKPSDTDDIVDKKISLVSYYLDFMSTV
                     RYLNSKANTHDSLRDLSFKMVIDFRNKGIDDLKDVIFSKIKLIENDIQKIDSIRYDKAN
                     RKLDLLRFLSRIASFLEVEMSITNAVGYETYVNRQLDHKTFDIEHMLCDDYVAVNSYLS
                     GNGSTVFSTKEEFSKVRNSIGNLILLPRGRNRSMQDAMYNNKLSVYSTENVLAQCLTDA
                     FYTNQPNYSRFSSSHNLVIKPYPIMDKEVIKERMALYQAIAIKLWSLDTATQLFGHANK
                     LDLVVVNDTD"
                     /name="DUF262 domain-containing protein"
     gene            5007..5333
                     /gene="mobC"
                     /locus_tag="HJX18_27110"
     CDS             5007..5333
                     /gene="mobC"
                     /locus_tag="HJX18_27110"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001715145.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization relaxosome protein MobC"
                     /protein_id="QJL10401.1"
                     /translation="MEKRTKEIKIRLTETEHQRLLDRCDRTHLAEWLRQLGLGEHTSRK
                     RRVPEVAPELLRQVSGIGNNLNQIARRLNQTDSLTPTERASLLVVLTSLDRQLGDLLEQ
                     NRDR"
                     /name="mobC"
     Typing          complement(5141..5333)
                     /name="Col(Ye4449)"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="81.026"
                     /coverage="100.0"
                     /evalue="4.02e-35"
     Typing          3..1081
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.222"
                     /coverage="99.0"
                     /evalue="1.32e-174"
     Typing          5324..5808
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="97.531"
                     /coverage="99.0"
                     /evalue="5.65e-98"
ORIGIN
        1 gccccgcgac aaacagcagg cggcagagaa aatcaccgcc ggcctgatga acctgatgca
       61 gcagggcgtg atccgcagcc ggcaggacgt ggtgacgcag ctggaaagct acggcctgac
      121 cgtagcgcgg gaaacgaaaa gcagcatcag cattgccgat ccggacggcg gccgaaatat
      181 ccggctgaaa ggaatgattt atgagcgaga ttttaaattt ggcgaagggc ttcgaggaga
      241 aatcgaagca gcaggcgcag gataccgagc agagcgtgaa gcgcgagttc gcgaggctgg
      301 agacgtctat cagcgcggaa ctgcaatcaa gctcgcagag catcagcaac gctatccgcg
      361 agcagaacgg caggctgacg ggcatgatca gaacctccgt ttcagcggcg atggcgtggg
      421 tattcctctg cttcgccctg ctgatcggca tcatgggggg gataatctgg tttcagggca
      481 cgatcatcac ctcgcgcctg agcgaaatgg acagctacag ccagcagctg gcgaacctga
      541 aagcgaaaag cggcgcgggc gtgacgattt acagcgacga cacgcgccgg aacacctacc
      601 tggcggtgct gccgaagcag gcgcatggcg tggaaaccta cacgtcgacg accggcaaca
      661 ccgtggtgaa atacacggca aaataacccc gccagagcgc cctgaaacgc cacagcgcgt
      721 ttttaacact gaggactacc aaaaccatga ccgagatgga aaaacagctt ctgagcgctt
      781 tagagagctt acagacaggc tacgagcaac agcagcaggc gtggcaggac agctacagca
      841 gtttgcagcg catgttcgag gctacctcac aggcgctgac gcacagcgac cgggtgtgtc
      901 agcacttgag cagtcaggta gagagcttgc gcgcgcaggt cgagagcttg agcaggaacg
      961 tcagccgctt gatgcgctga tcaggcagca tgaccgcgcc tacgcggaga agctgcgtga
     1021 gcagcagaag ccagagccgg agccgcagaa aaaaccgacc cgctactatg gcccctcgat
     1081 gtaaccgctt ttctgaaatc agaattaagt gtactatgta ctccattaag cataggagac
     1141 agctgtgagt cacgcgattg agtttatcga gaccccgatg tttacccgtc agataaaaca
     1201 gatcgccacg gatgaagagc tcagggagct gcaaaagacg ctgattgagt cgccggacaa
     1261 aggcgatctc atccagaaaa ccggcgggct gcgaaaagtc agaatggcga cgggaaacca
     1321 gggaaaaagc ggcagtgcaa gggtgattta cttcctggcc accgccgagg tgatttatct
     1381 ggtgatggcc tacccgaaaa gcaccaaaga cagcctgacg gacgcggaga aagccgcgct
     1441 gaagatgctg acccaacaac tgaaagacga ggtgtgacat gagttttttt gacgagctga
     1501 aagcatcgct ggaagaagcc gttgaaatca aaaacggcgt cagagagcct gcccgcgtca
     1561 cccgttacga gctggcagac gtgaaggcca tcagggcaca gctgaacgtt tcacagagcg
     1621 agatggcgaa agtgctggga accagtctcg ataccatcaa gagctgggaa accggacgcc
     1681 gtaacccgac cgggctggca gcaaaggtgc tggcaaccat ccaggcgaac ccgaaatttt
     1741 tccaggagct ggcggcgcac taagccgttg tgacagaagg attcgacagg cgaggccgtt
     1801 cgcgtgtaat ttagcggcaa cagaaaaaac aaagccccgg aaatcatgct caatcttggc
     1861 ggatgcacat gataaccagg gccaggtacg aaaccttgaa aggatattag cacatgaacc
     1921 gtgccagaca acagcccgcc ataagcgcag ggcgcattgc ataacgccgc actcgaactc
     1981 ttcaacgacc gcttaccgca caagccgtac ttttcggacg atctgcattt tggtgtacgg
     2041 attgccggta aggaacgcgc cattctggcg aaatacatcc agttcaatca gcctcacgcc
     2101 atgttctggc tgggattcga cgttgatcgc gccggtgccg ccatcgactg gagcgaccgc
     2161 aacgcgcccg cgcccacgct gaccattacc aaccccgaca acggacatgc gcacctgctg
     2221 tacgcgctga aaacctcgat acgcaccgcg ccggacggaa aaatgaagcc gctgcgctac
     2281 gctgccgccg tggagaacgc gctacgcaaa aaattagagg ctgacgcggg gtattcgggg
     2341 ttaatctgca aaaatccgaa ccacggtcac tggaaaattg ccgtgtggca gccggaactc
     2401 tacacgctgg actggctggc cgactttctc gacctgagtg cggcgaacga caaggaaatt
     2461 gtcgccgact acggcttagg ccgtaactgc accctgttcg acaaaacccg caagtgggca
     2521 taccgcgcca ttcgtcaggg ctggccagag tatgatcagt ggctaaaagc atgttatgag
     2581 agaacgtgtg cctacaatct gcaatttgca gtacctttgg atgagaacga ggtaactggt
     2641 attgctaaaa gtattgcacg ttggactaat aaaacattca cgaaaagctc ctttgatgaa
     2701 tatgtcctta ctacacattc ctcagaagtt cagtcaataa gaggaaaacg tagtaaggga
     2761 ggaggaaggc catctctaaa taaaccttgg atagaattag gcataagtag agctacgtac
     2821 tttagaagga aaaaggaaaa atgatgggta tagaacaaaa gagtgtatct gcatgtcttc
     2881 agcaaaagtt caatttacca acatatcaga gagagtataa atggggcatc actcagttac
     2941 aggatttgct ttctgacata caacatacat ttctttctca atgggacgcg tcacatggaa
     3001 gaaatcatgc cttatcatat aaagagtact tcttaggaag tatcattacg gcacctggag
     3061 ttaatggcag caaaataata atagatggac agcagcgagt aacaacactt actttggtgc
     3121 tctgctattt ccatcgttat tctttgttaa atcccaatct agacatatct ccggttgata
     3181 taaacataag aagaaagcta gctggtgtaa actcttttaa tctcgatgtt agtggagcaa
     3241 gagagagtct ccttaatata ttaatggggg acgatattga tgatatatct ttctgttcaa
     3301 gtgttgattc aatacccaat aaggatactg ggacaattaa aatgtgggat caataccaaa
     3361 aaattggcga cttaatagat cctgagattt tgtcaaataa cttaatgcca aactttatag
     3421 attatctgac tgagagagtt tatctttatc aaattatcgt tgatgatgaa agcgacggtc
     3481 ataaagtttt cgttactatg aatgatagag ggttgaagtt gactcctatt gatttgttga
     3541 aagggtttct actttcaggt gtaagtgttc ctaagcagaa tcgacaggca cacgaagctt
     3601 ggcagaactc agtaagtgag ttgaacaaac tcagctatga tgagtcctcg ctatttataa
     3661 agaattggct tcgatccaag tatgcaaaaa caaatagagc aaaacgtaca aatgaagagc
     3721 caaaagactt tgacgtcatt gcagctaatt accatcgatg ggtgatagag aaaaaagatg
     3781 aactgtctct caaaaataac gatgattatt ttgagttcat aacaaaagac tttgtgtttt
     3841 actcgaaagt atatttaaaa atacgagagt tagaatgcaa gctaaatatg gagtttccac
     3901 atgtttatta caacggttcg agagatttaa ccgtccaggc aatgattatt atgtctgcga
     3961 tcaagcctag cgacacagat gatatagtag ataagaagat atctcttgta tcatattatc
     4021 tagatttcat gtctacagta agatatttaa actctaaagc taacacgcac gactcactta
     4081 gagacttatc ttttaaaatg gttattgatt tcaggaataa gggcatcgat gatctgaagg
     4141 atgttatttt ttccaagata aaattgatag aaaatgacat ccaaaaaata gatagtatta
     4201 gatacgacaa ggcaaacagg aagttagatt tacttagatt cttatcaaga attgcatcgt
     4261 ttctagaagt ggaaatgtca ataacaaacg cagtaggtta tgaaacctat gtcaatcggc
     4321 agttggatca taaaacattc gacattgaac atatgttgtg tgatgactat gttgcagtta
     4381 atagttactt atccggcaat ggcagtacag ttttttctac aaaagaagaa ttctcaaaag
     4441 taagaaattc tattggcaac ctcattcttc ttcctcgcgg aagaaatagg tcaatgcaag
     4501 atgcaatgta taacaataaa ctatcagttt atagtacgga gaatgttctg gctcaatgtc
     4561 taactgacgc gttctacacc aatcaaccta attactctcg atttagcagt tctcataatc
     4621 tagtgataaa gccatatcca ataatggata aagaagtgat taaagaaaga atggcgttgt
     4681 atcaagcgat tgcaataaaa ctgtggtcat tagatacagc aacccaactt tttggacatg
     4741 caaacaaact ggatcttgtc gtagttaatg acactgattg agactaaaca acctatatca
     4801 gataacagcc ctcttttaag agggcttttg ttttacagct attacagaac ctgacatact
     4861 acaattcatc ttaagccagt acacacagcg tcccctctta cgaggttcca cagtgactgg
     4921 ttcagggggc tcgccgcccc ccgaaacccc tggcatccac tgcgaaaaat tctcacggtg
     4981 gtgcgaattt tttctcagcg gagcctatgg aaaagcgaac gaaagagatc aaaatccggc
     5041 tcaccgaaac tgagcatcag cgactgcttg atcgctgcga ccggactcac cttgcggagt
     5101 ggctgcgtca gcttggtctg ggtgaacaca cctcacgcaa gcgccgtgtg cctgaggtgg
     5161 cgcccgaact gctgcgacag gtcagcggga ttggcaacaa cctgaaccag atagcccgcc
     5221 gcctcaacca gactgattcc ctgacgccga ctgaacgtgc ctcgctgctt gtcgtactga
     5281 ccagccttga ccggcagctt ggcgacctgc tggagcaaaa ccgtgatcgt taaaattcac
     5341 tcgcggggtg cgggttcggg cagcgggccg gtggattacc tgctgggaaa agaccggcag
     5401 cgcgaacagg ccagcgtact gcgcggcaat cctgaacatg tgcgcgagct gatcgacggc
     5461 tgcaactttg cccgcgccta cacttccggc gtgctttcat tccaggaacc tgacattgca
     5521 gacgccgaga aatcgcgcct gatggacgaa tgggagcaca cgctgctgac cggactcgac
     5581 cgcgaccagt acgcctgcct gtgggtagag catcgcgaca agggacggct tgagctgaat
     5641 tttgtcatcc cgaacatcga attgcagagt ggaaaacgcc tgcaacccta ctttgaccgc
     5701 gccgaccgtc cccgcgtcaa cgcctggcag accctgacca acgaccggct ggggctgcgc
     5761 gacccgaatg acccgaccta ccgccgtccg ctgacgcagg ccagcgatct
//
