LOCUS       NZ_CP098134             4167 bp    DNA     circular CON 25-JUN-2024
DEFINITION  Klebsiella pneumoniae strain Z0117KP0028 plasmid pZ0117KP0028-3,
            complete sequence.
ACCESSION   NZ_CP098134
VERSION     NZ_CP098134.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN28703772
            Assembly: GCF_023657655.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4167)
  AUTHORS   Yoon,E.-J., Choi,Y.J., Won,D., Choi,J.R. and Jeong,S.H.
  TITLE     Klebsiella pneumoniae, a One Health interface shuttle organism for
            the genes of CTX-M ESBL
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4167)
  AUTHORS   Yoon,E.-J., Choi,Y.J., Won,D., Choi,J.R. and Jeong,S.H.
  TITLE     Direct Submission
  JOURNAL   Submitted (28-MAY-2022) Research Institute of Bacterial Resistance,
            Yonsei University College of Medicine, Gangnam Severance Hospital,
            Yonsei, Seoul, Select One 06273, South Korea
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: other: SMRTLink v. v10.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 274x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_023657655.1-RS_2024_06_25
            Annotation Date                   :: 06/25/2024 04:14:23
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,672
            CDSs (total)                      :: 5,550
            Genes (coding)                    :: 5,421
            CDSs (with protein)               :: 5,421
            Genes (RNA)                       :: 122
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 129
            CDSs (without protein)            :: 129
            Pseudo Genes (ambiguous residues) :: 0 of 129
            Pseudo Genes (frameshifted)       :: 54 of 129
            Pseudo Genes (incomplete)         :: 74 of 129
            Pseudo Genes (internal stop)      :: 20 of 129
            Pseudo Genes (multiple problems)  :: 16 of 129
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP098134.1.
            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/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..4167
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="Z0117KP0028"
                     /host="Canis lupus familiaris"
                     /db_xref="taxon:573"
                     /plasmid="pZ0117KP0028-3"
                     /geo_loc_name="South Korea"
                     /collection_date="2017-09"
     gene            join(3802..4167,1..36)
                     /locus_tag="NBY54_RS28240"
                     /old_locus_tag="NBY54_28215"
     CDS             join(3802..4167,1..36)
                     /locus_tag="NBY54_RS28240"
                     /old_locus_tag="NBY54_28215"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /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="WP_012579088.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSGQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(382..624)
                     /locus_tag="NBY54_RS28245"
                     /old_locus_tag="NBY54_28220"
     CDS             complement(382..624)
                     /locus_tag="NBY54_RS28245"
                     /old_locus_tag="NBY54_28220"
                     /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="WP_098963735.1"
                     /translation="MHSAEIHTIQPGEVLFPAFFSSENGERGRNLLRGREALPAQPENR
                     FSAPSGIGFVDGRQSRYGKSPDDSPHDSPAIRIVN"
                     /name="hypothetical protein"
     gene            complement(990..1622)
                     /locus_tag="NBY54_RS28250"
                     /old_locus_tag="NBY54_28225"
     CDS             complement(990..1622)
                     /locus_tag="NBY54_RS28250"
                     /old_locus_tag="NBY54_28225"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000804504.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF3226 domain-containing protein"
                     /protein_id="WP_012579086.1"
                     /translation="MKDINNSKKIIFVEGDDDFHFLCNLLEIQGITDVFVEKINGKSKL
                     KQALRAFKNIDSFDEKESIFIILDADTSFSDTERSIIATLRELQISSPSSHNEIAMNGN
                     TKISFFIMPGKDKQGAIEDLIIEHASTRALYEYIIEFFEKIKNNKDDISASDKEYTYPT
                     NEKKAKVQVYLSCNRESDSRIGISMKNGIINTADNCFDEIKDFISKI"
                     /name="DUF3226 domain-containing protein"
     gene            complement(1622..2737)
                     /locus_tag="NBY54_RS28255"
                     /old_locus_tag="NBY54_28230"
     CDS             complement(1622..2737)
                     /locus_tag="NBY54_RS28255"
                     /old_locus_tag="NBY54_28230"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019405083.1"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA];
                     GO:0016887 - ATP hydrolysis activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ATP-binding protein"
                     /protein_id="WP_012579087.1"
                     /translation="MIKEISLKNFKCFNELYLKQLKTLNIIAGKNNYGKTSILDAIFCF
                     YDVKNPAVLLNIQAFRKEMAEINKNKPFWVSYFHDMDTSQKMSIVIRDERSEVTQTYET
                     ETNQRLESSLSLNVDTVLSNQNIPRQTIGSQATVNSLKINVTETPNAKNRVSNKLFSMQ
                     LKEDGVEIKSEIKNERDGINYKFKTATIITTSRKINKEATITNVSSLLTQKRKKDILEN
                     LKKIDDRIVDIAISAIGNNKEIYLDIGFSELNEISMLGEGISRALSFISSVLVQENSII
                     LIDEIENGIHYSVIKDIIKSLISSAKQNNNQIFATTHSQDVIRAINEIDSKNEDIAYIR
                     LGREKNSLKPTAVQFNMDDFSYSVENDWEVR"
                     /name="ATP-binding protein"
     gene            complement(3082..3195)
                     /locus_tag="NBY54_RS28260"
                     /old_locus_tag="NBY54_28235"
                     /pseudo=""
     CDS             complement(3082..3195)
                     /locus_tag="NBY54_RS28260"
                     /old_locus_tag="NBY54_28235"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="internal stop; 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            3611..3802
                     /locus_tag="NBY54_RS28265"
                     /old_locus_tag="NBY54_28240"
     CDS             3611..3802
                     /locus_tag="NBY54_RS28265"
                     /old_locus_tag="NBY54_28240"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166328.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_004187666.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          complement(3083..3490)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.399"
                     /coverage="99.0"
                     /evalue="5.92e-171"
ORIGIN
        1 ccggcgccat ggtggaaatt ctggaaaaaa tcctgacccc gtcatgcttc agttttcctc
       61 tccggccatc ccagggagtt cctgaacctt cccaaaaatc gtcagatctc tgaacgctcc
      121 tcaccactaa aaatacccac accccacgca aaattaaaat tttgcagatt ccttatttac
      181 aacaatgggt taatgaaaaa taaatgtgcg gtgatgtgtt acaaagtgca gatccaagtc
      241 gtggacgact ctatggcgaa tcgctgacga attgcccacg attcatatgt gaatcacgct
      301 ttattatcat attgttatga tgaatcgact cttgattcaa ttcatcactt tgggtgtttt
      361 ttgctcatgg tgactcttga ttcaattcac gattcgaatc gccggtgaat cgtgtggtga
      421 gtcgtccggc gacttgccat aacgtgattg ccggccgtcg acgaacccga ttcctgaagg
      481 tgctgaaaac cggttttccg gctgcgccgg caacgcttca cggccacgca ataaattgcg
      541 tccccgttca ccgttttcgg aggagaagaa cgccggaaac aggacttccc ctggctgaat
      601 ggtgtgaatt tccgcgctat gcacttgcgc gcatactcat gcatgccgta aaaacagagc
      661 ctgcgcgttt ctggcgggtt ttcgggtggt ttgttgcctg ttttaccggt ttcccgtcag
      721 aaacgtcctg agtccgtttt agcggtgcgt acaattatga ttttatgtta aattgtttta
      781 agtgaataga gagaatataa cttaagggag catcttgtgc tgggtctttt acattagatc
      841 tgcacaatca ttgttttggc atctggtgat gtctttagga cgtttgagat tgctgataac
      901 taaagtgtat gatgctttct atacgttatc cggcgtttaa taacaccctg gtgataagcc
      961 agcccgtgaa gggctggctt gatttggatt tatatttttg aaataaaatc ttttatttca
     1021 tcaaagcaat tgtctgctgt gtttattatt ccatttttca tggatattcc tattcttgag
     1081 tcggattctc tattgcagct aagatagact tgtaccttag cttttttttc gtttgttgga
     1141 taagtgtact ctttgtcact cgctgagatg tcatctttat tatttttaat tttttcgaaa
     1201 aattctatta tgtattcata taacgctcga gtgcttgcgt gttcaattat cagatcttca
     1261 atggcacctt gcttgtcttt tcctggcatt ataaagaaag aaatttttgt attgccattc
     1321 atagctatct cgttatgcga gctgggggag gagatttgta gttctcgcaa tgtggcaatt
     1381 attgatcttt ctgtgtcaga aaatgatgtg tcagcatcta atataataaa aatactttct
     1441 ttttcatcga aagaatcaat gtttttgaat gctctaagtg cttgttttaa ttttgatttt
     1501 ccatttattt tttcgacaaa aacatcggta atgccttgta tttcaagtag gttgcataga
     1561 aaatgaaaat catcatcacc ctcaacgaaa atgatctttt tgctattatt tatgtctttc
     1621 attatcttac ctcccagtcg ttctcaactg agtaggagaa atcatccata ttgaattgta
     1681 cggctgttgg ttttagggag ttcttttctc ttcctagtct aatataagcg atatcttcat
     1741 ttttgctatc tatttcgttt attgctcgta tcacatcttg actatgagtt gttgcaaata
     1801 tttgattgtt gttttgtttt gcagatgaaa ttaatgattt tattatgtct ttaattactg
     1861 agtaatgtat tccgttctcg atttcatcaa taagaataat tgagttttcc tgtaccagca
     1921 ctgagctgat aaaagataat gctcgactga taccctcgcc aagcattgat atttcattta
     1981 gctcactaaa tccaatgtct aaatatattt ccttattgtt acctatcgca gatattgcta
     2041 tatctacaat tctgtcatct atttttttta agttttctag tatgtctttt ttcctttttt
     2101 gtgttagtag gctagataca tttgtaattg ttgcctcttt gtttatcttt ctggatgttg
     2161 ttattattgt tgctgtctta aatttataat taatcccatc cctttcgttt tttatttcgg
     2221 attttatttc tacgccatct tctttcaatt gcatagagaa aagcttattg gaaaccctgt
     2281 ttttcgcatt gggtgtctcg gtcacattta tttttaaaga gtttactgtg gcctgagaac
     2341 cgatagtttg acgaggtatg ttttggttag atagtacggt gtcaacgttt agagacaaac
     2401 ttgattctaa tctctgattt gtttctgttt catatgtttg tgttacttca gagcgttcat
     2461 ctcgaatgac tatggacatc ttttgtgatg tgtccatatc atgaaagtaa ctaacccaaa
     2521 atggcttgtt tttgtttatt tctgccattt cttttctgaa tgcttgaatg tttaacaaaa
     2581 cagccgggtt ttttacatca taaaaacaaa aaatagcatc cagtatagat gttttcccgt
     2641 agttgttttt cccagctatg atatttaaag tctttaattg ctttagatat agctcattga
     2701 agcatttgaa gttctttaaa cttatttcct ttatcatgat agcctctgtt cgtgtttttg
     2761 ttatatgcca tacgatttgt tagtacctta ataaaatgta cagctttcat tgtgattagc
     2821 tagactttat gtcaaagatt aactttgatt gcttgtgttt taatcgattt tttttacttt
     2881 cttcttgaga ttatctggca gcagccgtaa gcttccggct gtgaacgaaa aaaaccgcct
     2941 tggcgggcgg ttttttcgaa aggttcagta gagttggcgc tctatgaacc gaggtaactg
     3001 gcttaaaggg agcgcagtca ccaaaactgt tcgtttagtt tagctttaac tggcgtataa
     3061 cttcaagact aactccctaa atcagttacc agtggctgct gccagtggcg ctttgtcgtg
     3121 tctttccggg ttggactcaa gacgatagtt accggattag gcgcagcagt cggactgaac
     3181 ggggggttcg tgcatacagt ccagcttgga gcgaactgcc tacccggaac tgagtgtcag
     3241 gcgtggaatg agacaaacgc ggccataaca gcggaatgac accggtaaac cgaaaggcag
     3301 gaacaggaga gcgcacgagg gagccatcag ggggaaacgc ctggtatctt tatagtcctg
     3361 tcgggtttcg ccaccactga tttgagcgtc agattccgtg atgctcgtca ggggggcgga
     3421 gcctatggaa aaacggccgc tgtgcggcct ttccttcttt cctccatgcg attactcggt
     3481 tttctcgagc gtttctacgc atgctcctgc cgctcgccgc agccgaacgg caggagcgta
     3541 gcgactgagt gagcgaggaa gcggaaaaga ggagatccct acactgacca ctgacgctct
     3601 gaggcctctt atgacgaaac aacagaaaac agcgctgaac atggctaaat tcatccagaa
     3661 tcagtctctg ctcctgctgg agaagcttaa cgagcttgat ctcgatgtcg aggccgacct
     3721 ttgtgagaaa ctccacgatg atgcggagca tcttttccgt acactgtcct cgagactgga
     3781 tgcattacag gatggtaact gatggccaga gtgtctatta gtgaggctgc ccgactgacg
     3841 ggtaagagta gaacaacact gcacaggtta attaaagcag gtgacctgtc cacctgtagc
     3901 ggtgagcgca atgcaaaaat ggtagatact tcagagcttt tacgtgtctt tggccccttt
     3961 gagcaaccga agggtgaaca ccattctgga caggtctctg gacagcgtga tacagcctct
     4021 gctgaccaga gtgaacaggt gatccgtcat ctgaaacagg agattgaaca cctgaacacc
     4081 ttacttttgt ccaaggattc gcacattgac agcctgaaac aggccatgct ccttcttgaa
     4141 aatcaccagg caaaattaac tgaatcc
//
