LOCUS       NZ_CP143511             3675 bp    DNA     circular CON 05-FEB-2024
DEFINITION  Klebsiella pneumoniae strain KP2009864 plasmid pKP2009864_4,
            complete sequence.
ACCESSION   NZ_CP143511
VERSION     NZ_CP143511.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN39593715
            Assembly: GCF_036347675.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3675)
  AUTHORS   Maguire,M.
  TITLE     Spatiotemporal and genomic analysis of carbapenem resistance
            elements in Enterobacterales from hospital inpatients and natural
            water ecosystems of an Irish city
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3675)
  AUTHORS   Maguire,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (24-JAN-2024) Bacteriology, University of Galway,
            University Road, Galway, Galway 000000, Ireland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 81.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/03/2024 23:13:27
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,841
            CDSs (total)                      :: 5,717
            Genes (coding)                    :: 5,551
            CDSs (with protein)               :: 5,551
            Genes (RNA)                       :: 124
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 166
            CDSs (without protein)            :: 166
            Pseudo Genes (ambiguous residues) :: 0 of 166
            Pseudo Genes (frameshifted)       :: 68 of 166
            Pseudo Genes (incomplete)         :: 101 of 166
            Pseudo Genes (internal stop)      :: 31 of 166
            Pseudo Genes (multiple problems)  :: 27 of 166
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP143511.1.
            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..3675
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="KP2009864"
                     /isolation_source="Human rectal swab"
                     /db_xref="taxon:573"
                     /plasmid="pKP2009864_4"
                     /geo_loc_name="Ireland"
                     /collection_date="2020"
     gene            complement(390..692)
                     /locus_tag="V1671_RS29170"
                     /old_locus_tag="V1671_29170"
     CDS             complement(390..692)
                     /locus_tag="V1671_RS29170"
                     /old_locus_tag="V1671_29170"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006326557.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF3892 domain-containing protein"
                     /protein_id="WP_023317863.1"
                     /translation="MVDFYISAIKMDSAGQHIEFVKVHKINRDGSWNTAGSISSRKFIS
                     ELISMGKASFMTVVKNSSTGKWNLGAKVEAMNDGYITTDPNKTKLDNLGNLPKFV"
                     /name="DUF3892 domain-containing protein"
     gene            complement(756..1049)
                     /locus_tag="V1671_RS29175"
                     /old_locus_tag="V1671_29175"
     CDS             complement(756..1049)
                     /locus_tag="V1671_RS29175"
                     /old_locus_tag="V1671_29175"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000609279.1"
                     /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="HigA family addiction module antitoxin"
                     /protein_id="WP_023317864.1"
                     /translation="MINLYDPVHPGEFIREMFMEPFEIPAAELADKLDVSQSTLSRLLN
                     GKTDLSYEMALRLSKVVGRSAESWVNMQTQFSLSKSRKSLAAELEHLHPMFP"
                     /name="HigA family addiction module antitoxin"
     gene            1386..1667
                     /locus_tag="V1671_RS29180"
                     /old_locus_tag="V1671_29180"
     CDS             1386..1667
                     /locus_tag="V1671_RS29180"
                     /old_locus_tag="V1671_29180"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000594459.1"
                     /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="WP_032440460.1"
                     /translation="MIKNIKHKGLRSFAEEGSTAGIQPSMAKRLRMILTTLSTATCIQD
                     VVDVRALGCHPLKGERKGEYSVEVNGNWRVVFKVEEPNVLDVDLEDYH"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            complement(2125..2271)
                     /locus_tag="V1671_RS29185"
                     /old_locus_tag="V1671_29185"
     CDS             complement(2125..2271)
                     /locus_tag="V1671_RS29185"
                     /old_locus_tag="V1671_29185"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001717510.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_073545459.1"
                     /translation="MHEPPVQSDCCTLSGNYHLESNPVRHAQAPLAAATGKKVYKRLLI
                     QSS"
                     /name="replication initiation protein"
     gene            2688..2879
                     /locus_tag="V1671_RS29190"
                     /old_locus_tag="V1671_29190"
     CDS             2688..2879
                     /locus_tag="V1671_RS29190"
                     /old_locus_tag="V1671_29190"
                     /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"
     gene            2879..3280
                     /locus_tag="V1671_RS29195"
                     /old_locus_tag="V1671_29195"
     CDS             2879..3280
                     /locus_tag="V1671_RS29195"
                     /old_locus_tag="V1671_29195"
                     /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="WP_117265036.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSVQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     Typing          complement(2103..2643)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.23"
                     /coverage="90.0"
                     /evalue="1.9199999999999998e-172"
ORIGIN
        1 gacttgccat aacgtgattg ccggccgtcg acgaacccga ttcctgattg cgctgaaaac
       61 cggttttccg gctgcgccgg caacgcttca cggccacgca ataaattgcg tccccgttca
      121 ccgttttcgg ataggaagaa cgccggaaac aggacttacc ctggctgaat ggcgtgaatt
      181 ttcgcgatat gcacttgcgt gcatactcat gcatgccgta aaaacagagc ctgcgcgttt
      241 ctggcgggtt ttcgggtggt ttgttgcctg ttttaccggt ttcccgtcgg aaacgccctg
      301 aggccgtttt agcggtgcgt acaattatga ctttatgtta aatcattagg gaggggattc
      361 tgctggaact tagaggatgt tattgcatat cagacaaatt tcggcagatt tcccaagtta
      421 tcgagtttag ttttgtttgg atctgtggtt atgtagccat cgttcatcgc ttccactttg
      481 gctcctaggt tccacttacc agtagagctg ttctttacaa ctgtcataaa gctggctttt
      541 cccatgctga tcagctcgct gatgaatttg cgagagctga ttgagccggc agtgttccat
      601 gagccatctc ggtttatttt atgaactttt acgaattcga tgtgctgacc agcactgtcc
      661 attttgattg ctgagatata gaaatctacc atggttgcct cctgatggct gctgggtgtt
      721 ttacgtaaca aaagcccgcg ttctgcgggc ttttttcatg gaaacattgg atgcaagtgt
      781 tccagctctg ccgctaaaga tttgcgactt tttgacaggc tgaattgggt ctgcatgttt
      841 acccacgact ctgcagagcg gcctacgacc ttcgacaatc taagtgccat ttcatagctt
      901 aagtctgttt tcccatttaa cagtctactt aaggtagact gggatacatc aagtttatcg
      961 gctaactctg cggcaggtat ttcgaacggt tccatgaaca tttctctgat aaactcacca
     1021 ggatgaacag gatcgtaaag atttatcatg ccttcctctg tttgttttgt atttgattat
     1081 acaaaaaaat tactgccttt cagtatgcgc attgcacaat gtgcaagctc atgatattga
     1141 caaaaaaagc agtcagcttt aggatactcg ttggagtcaa agctactgcg tatgtatggg
     1201 cttttatggc cttttcaagg cgcagtattt tacccttagg attcgttgaa gtcaaatgag
     1261 gtgattgacc tcaagaacaa acttacgtca attgttttaa taaagcaagg gggcaaaatg
     1321 gaactaatta aaatgatttt aaaatataga tacaggtata gacgaaaaaa atatggggat
     1381 tgtagatgat aaaaaacata aaacataaag gacttaggag ctttgctgaa gaaggtagca
     1441 ccgccggtat tcagcccagt atggcgaaaa gacttcgcat gattttgact acgctaagca
     1501 cagcaacttg cattcaagac gttgttgacg ttagggcgtt agggtgccac cccctaaagg
     1561 gggagcgtaa aggcgagtat tccgttgaag ttaatgggaa ctggcgggta gttttcaagg
     1621 ttgaggaacc aaacgtctta gacgttgatc ttgaagatta tcattagtta tcaataagta
     1681 agttgctaat ccatccaagt gaaagtacgg atggattagg gactttatta aaaaagtaac
     1741 ctctggagaa agtatgagat cctttatggt tttattgttc ccgttgatta gcgtaactat
     1801 tgctggagtc ctagcttttc gtggtattga tggctgggga tggttcttgt tagctgctgt
     1861 actttgtgca ggggctgata ctgtccagaa gcatgtgtct accaataaaa aggagcctgc
     1921 tggtgagtga gctgccttgg ttcttccttg actgctttga atgataaagc gtatcttact
     1981 cgccgagacg aaaaaaccgc ctggggaggc ggttttttcg agggttcagt aagttgggga
     2041 acttctgaac cgtggtaaca gggtgtacaa gaccgctgaa accaaattct gtcctttcag
     2101 tttagccgta gttgggctga gacttcaaga actctgtatc agtaatctct tgtacacctt
     2161 cttaccagtg gctgctgcca gtggcgcttg tgcgtgtctt accgggttgg actcaagatg
     2221 atagttaccg gataaggtgc agcagtcgga ctgaacgggg ggttcgtgca tacagtccag
     2281 cttggagcga actgcctacc cggaactgag tgtctggcgt ggaatgagat aaacgcggcc
     2341 ataacagcgg aatgacaccg gtaaaccgaa aggcaggaac aggagagcgc acgagggagc
     2401 catcaggggg aaacgcctgg tatctttata gtcctgtcgg ggttcgccac cactgatttg
     2461 agcgtcagat ttcgtgatgc ttgtcagggg ggcggagcct atggaaaaaa cggccgtcgc
     2521 tcggccttac actttctctc ttacgttagc gctcggtttt ctcgagttct tacacgcatg
     2581 cccctgccgc tcgccgcagc cgaacggcag gagcgtagcg actgagtgag cgaggaagcg
     2641 gaaaagagaa catccctaca ctgagcactg acgctctgag gcctcttatg acgaaacaac
     2701 agaaaacagc gctgaacatg gctaaattca tccagaatca gtctctgctc ctgctggaga
     2761 agcttaacga gcttgatctt gatgtagagg ccgacctttg tgagaaactc cacgatgatg
     2821 cggagcatct tttccgtaca ctgtcctcga gactggatgc attacaggat ggtaactgat
     2881 ggccagagtg tctattagtg aggctgcccg actgacgggt aagagtagaa caacactgca
     2941 caggttaatt aaagcaggtg acctgtccac ctgtagcggt gaacgcaatg caaaaatggt
     3001 agatacttca gagcttttac gtgtctttgg tccctttgaa caaccgaagg gtgaacacca
     3061 ttctgtacag gtctctgaac agcgtgatac agcctctgct gaccagagtg aacaggtgat
     3121 tcgtcatctg aaacaggaga ttgaacacct gaacacctta cttttgtcca aggattcgca
     3181 cattgacagc ctgaaacagg ccatgctcct tcttgaaaat caccaggcaa aattaactga
     3241 atccccggcg ccatggtgga aattctggaa aaaatcctga ccccgtcatg cttcagtttt
     3301 cctctccggc catcccgggg agttcctgaa ccttcccaaa aatcgtcaga tctctgaacg
     3361 ctcctcacca ctaaaaatac ccacacccca cgcaaaatta aaattttgaa gataactcat
     3421 taatatcagt tagttgtggg ttattacatt acgcagtatt actttctgta aggtgaatcc
     3481 aagtcgtcgg cgattcgtgt acgacttgcc gacgactcgt catagagtca tcgacgactc
     3541 acttaagact atcagtaact tatgacgact tgactctaga gtcgaatcgt cattttggtg
     3601 tttttttgac cttgacgact ctagagtcaa gtcacgagtc gaatcgccgg tgaatcgtgt
     3661 ggtgagtcgt ccggc
//
