LOCUS       CP044388                3351 bp    DNA     circular BCT 11-DEC-2019
DEFINITION  Klebsiella pneumoniae strain 2018C01-239 plasmid p2018C01-239-3,
            complete sequence.
ACCESSION   CP044388
VERSION     CP044388.1
DBLINK      BioProject: PRJNA574008
            BioSample: SAMN12838235
KEYWORDS    .
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3351)
  AUTHORS   Chen,F.-J., Liao,Y.-C., Wu,H.-C., Huang,W.-C., Kuo,S.-C. and
            Lauderdale,T.-L.
  TITLE     Emergence of mcr-like genes in human Klebsiella pneumoniae in Taiwan
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3351)
  AUTHORS   Chen,F.-J., Liao,Y.-C., Wu,H.-C., Huang,W.-C., Kuo,S.-C. and
            Lauderdale,T.-L.
  TITLE     Direct Submission
  JOURNAL   Submitted (25-SEP-2019) National Institute of Infectious Diseases
            and Vaccinology, National Health Research Institutes, 35 Keyan Road,
            Zhunan, Miaoli 35053, Taiwan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2019
            Assembly Method                   :: CCBGpipe v. 1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 80x
            Sequencing Technology             :: Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 09/26/2019 14:44:26
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 4.9
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 5,665
            CDSs (total)                      :: 5,539
            Genes (coding)                    :: 2,880
            CDSs (with protein)               :: 2,880
            Genes (RNA)                       :: 126
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 2,659
            CDSs (without protein)            :: 2,659
            Pseudo Genes (ambiguous residues) :: 0 of 2,659
            Pseudo Genes (frameshifted)       :: 2,539 of 2,659
            Pseudo Genes (incomplete)         :: 149 of 2,659
            Pseudo Genes (internal stop)      :: 44 of 2,659
            Pseudo Genes (multiple problems)  :: 67 of 2,659
            ##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/
            NCBI analysis of this genome has determined that >30% of the
            predicted CDS features contain frameshifts, which is well above the
            usually observed value of <10%.
FEATURES             Location/Qualifiers
     source          1..3351
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="2018C01-239"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p2018C01-239-3"
                     /geo_loc_name="Taiwan"
                     /collection_date="2018"
                     /collected_by="NHRI"
     gene            29..493
                     /locus_tag="F7P04_28300"
     CDS             29..493
                     /locus_tag="F7P04_28300"
                     /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="helix-turn-helix domain-containing protein"
                     /protein_id="QGW01474.1"
                     /translation="MENKNNLSSEVKNHVSKWGKTNISAGWTIIPNALLENQSRLGLSC
                     IDTMVLINLIMHWWEKDNPPRPSKKRLANMLGVSLKTVQRSFIHLEQCGAIKRIPRYKE
                     GKDNARTTNHYDLNGLVDLLEGFSKELIEEREANRKSEVNRPKKRGNPKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            681..872
                     /locus_tag="F7P04_28305"
     CDS             681..872
                     /locus_tag="F7P04_28305"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004201037.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QGW01475.1"
                     /translation="MAAGFGRMLALKANFEQKKRTSRVRMSDKICTNSQPVPIREPANK
                     YDSKKWLSTAPALLIAQF"
                     /name="hypothetical protein"
     gene            complement(1197..1397)
                     /locus_tag="F7P04_28310"
     CDS             complement(1197..1397)
                     /locus_tag="F7P04_28310"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001558245.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QGW01476.1"
                     /translation="MTDDRTLQLRLTGFRKAEASLRLEGMDPSGTPLYESVKTRILSGD
                     ITFDEGRTEIRAHYQKRANSN"
                     /name="hypothetical protein"
     gene            complement(1593..1780)
                     /locus_tag="F7P04_28315"
                     /pseudo=""
     CDS             complement(1593..1780)
                     /locus_tag="F7P04_28315"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_013023910.1"
                     /note="frameshifted; internal stop; 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            1941..2085
                     /locus_tag="F7P04_28320"
                     /pseudo=""
     CDS             1941..2085
                     /locus_tag="F7P04_28320"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001487656.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /name="replication initiation protein"
     gene            complement(2532..3098)
                     /locus_tag="F7P04_28325"
     CDS             complement(2532..3098)
                     /locus_tag="F7P04_28325"
                     /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="QGW01477.1"
                     /translation="MAVFRQCEIREKYLAIYKESFDEVITYLEKAGALEPGVLRLTTID
                     DNAIRAWKSQWKGRSRKHAHGAWDWQNLVSKRARSCKRFDVAVWGEDVLCGLSVGKLTR
                     GKKTVRMDYLEACPTAHPLEKRITMIVVAVALSVAKKVGAQHVAIFNPIKDKEEKVLKH
                     YQSYGFTQRMLYGRFLKNVLYKEVV"
                     /name="hypothetical protein"
     Typing          1449..2049
                     /name="rep_cluster_2324"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.05"
                     /coverage="92.0"
                     /evalue="0.0"
ORIGIN
        1 cctcagatga ccacaggatg catgttttat ggaaaacaaa aataacctgt cgagcgaagt
       61 aaagaaccac gtaagcaagt gggggaagac aaacatttct gcaggatgga cgattatccc
      121 aaatgcctta ctggaaaatc agtccaggtt gggtcttagc tgtattgata cgatggttct
      181 cataaacctc ataatgcatt ggtgggaaaa agataacccc ccaagacctt cgaaaaagag
      241 actggcgaac atgctgggcg tttcactaaa aaccgttcaa agaagtttta ttcatttgga
      301 acagtgtggt gccatcaagc ggatacctcg atacaaagaa gggaaagaca atgccagaac
      361 aacaaaccat tacgatctga acggactggt agacctgctg gaaggttttt cgaaagagct
      421 tatcgaagaa agagaggcga atcgaaaaag tgaagttaat agacctaaga agcgcggtaa
      481 tccgaaaagt taataggctg acaaacacac tctcctgtag agagtccaat ttaccataac
      541 atctcttgcg tgcaccgccg cagaggccct cagcgcgttt ctgccgcgtg cgggccgttt
      601 ccggcacctt tccctgtcca tatcgtgaaa aaacgcgcct gatgatttct gcgcgcctgc
      661 atggctatgc acggaagtga atggcggctg gtttcggacg aatgctggca ctaaaggcga
      721 attttgaaca aaaaaaacgg acatcgaggg tcaggatgtc cgacaaaatt tgcacaaaca
      781 gtcagccggt accgatcaga gagccggcaa ataagtatga cagtaaaaag tggttatcaa
      841 ctgcccccgc gctgctgatt gcgcagtttt agggctttgg ccagtgcagg caggcccggc
      901 cggaatcagg ggatctggta acggtgaacg ggtgcacagt tgactgtgcg gccgtgaggc
      961 gttggccaag ccgccgccga gcgcggcagc ttccggtggg tacaaacgcc agcactttgc
     1021 gaatcctgcc ctagatctca acagcagaga aatttcgtac gcacgaaact cagcgtatcg
     1081 ggcggcgcct gatgaaacat tctggagtgt cggcggtact ccaaaaacac atcttgtccc
     1141 gctgatgttg tcactggcgc aaagcggcgg taatgacaag acatttcctg tccgcgtcag
     1201 ttactgttcg cccgcttctg gtaatgagcc cgtatctcag tgcggccttc atcgaaggtg
     1261 atgtcaccgg aaagaatcct tgtctttacc gattcataaa gcggggttcc tgatggatcc
     1321 atcccttcaa gcctgagaga ggcctccgct ttacggaacc ctgtcaggcg cagttgcagt
     1381 gtccgatcat cagtcatggt ttttcctttg agcagtcatg cgaataaggc aggcgtaaag
     1441 ttagctaact ttacatgtcc tgcccggatg ttgccgttgt atagctgtgc agggaaaagt
     1501 ggaaaacgac aggaaactgt tgcagccggg tgtgtaatca gggaggaaac gtgtgtaccg
     1561 agcgacacga tccctgttca gcattacaga cattacgctt cctcggtcat tcgctcactt
     1621 cgttcggtca tgacactgcg gcgagcgtta cctgctcagg cagaaggcca taaggaggtt
     1681 ctggggattg ccggttttcc ataggcttcg ccctcctgac aagcttcaca gaaatcaggt
     1741 gatttccggc gctcaaatca gaagtggcga aacctgacag gacttaaaga tccccaccgt
     1801 ttccgatggg tcgctccctc gtgcgctctc ctgttcccac cctgaggttt acccgttgca
     1861 gtccgccgta aggtggcgtt ttctcattcc tacccgtgca actgggttcc ttgtaggtgg
     1921 ttcgctccaa gctgggctgt atgcacgaac tccccgttca gcccgactac cacgtcttta
     1981 tcaggtaact gtactcttga atccaaccct gaaagacacg acaaagcgcc actggcggta
     2041 gccattggta gcagtgagtg cgagaggtgt atcgagagtt cttgaagtta aagcctgact
     2101 acagctacac tggaaggaca gatttggtga cacgtctcgc acaagactgt tacctaggtt
     2161 caaagagccg caaactcaat gaactggaaa aaaaccgccc cgcaaaggcg gtttttttct
     2221 tttgaaagaa aagagtacgc tttgcagaag aggcgagtca acaacagtca tctctttttg
     2281 aaaatataga gatctcgtta tttttttatc cacttgttat agtgtctaca tccccataca
     2341 agacagagag tcacaagatg agttatgtat ctgagcgcaa aagtgagctg gtaaaggcac
     2401 agcaacgcaa aatggatcca tcctctcctg attcagctcc aatcaatcag ggtcttatgg
     2461 acttcatcct gcttgctatg aaagtagatg acggctttgt tcaacgtggt cgtattcacg
     2521 gcgcatagct atcaaacaac ttctttgtac agcacgtttt tcaaaaagcg tccatacaac
     2581 attctttgtg taaacccgta agactggtag tgttttaaca ctttttcttc tttgtctttt
     2641 atcggattga atatggctac gtgctgtgcc cctacttttt tagctactga cagagccaca
     2701 gcaaccacaa tcattgtgat tcgtttctcc aacggatgag ctgttggaca agcctctaga
     2761 taatccattc taactgtctt tttaccacgg gttagctttc caactgaaag cccacaaagc
     2821 acatcctctc cccaaacagc cacatcaaat cttttacaag aacgagctct ctttgataca
     2881 aggttctgcc aatcccaagc accatgagcg tgcttacgag acctgccttt ccattggctc
     2941 ttccatgcac gaatagcatt gtcatcgatt gtagtgagcc ttaaaacgcc gggctctaaa
     3001 gcacctgcct tctcaagata agttataact tcatcgaatg actctttgta aatcgcgaga
     3061 tatttttctc taatttcgca ttgtctaaaa accgccacgc tcgtctccct cctgaccttg
     3121 accagtaaac attttgccat aaaaaaacca ctttaaatca tttgctaaca ttttggttag
     3181 tggtcaacaa agaccatatc ctatggtaca tttaaacccc accctgtgga ctttaaaaac
     3241 catagggtat ggtctgattt gaccacacag aaaaagatat agtgggacaa tacgttaaga
     3301 caatgacgca aggtgaacgg taaaacgttc aatatataaa atgccctcta g
//
