LOCUS       NZ_CP114327             3672 bp    DNA     circular CON 18-FEB-2024
DEFINITION  Klebsiella variicola strain 2022CK-00503 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP114327
VERSION     NZ_CP114327.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN31152642
            Assembly: GCF_025579525.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella variicola
  ORGANISM  Klebsiella variicola
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3672)
  AUTHORS   Hergert,J., Casey,R., Wagner,J., Young,E.L. and Oakeson,K.F.
  TITLE     2022CK-00503
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3672)
  AUTHORS   Hergert,J., Casey,R., Wagner,J., Young,E.L. and Oakeson,K.F.
  TITLE     Direct Submission
  JOURNAL   Submitted (08-DEC-2022) Utah Public Health Laboratory, Utah Public
            Health Laboratory Infectious Disease submission group, 4431 S 2700
            W, Salt Lake City, UT 84129, USA
REFERENCE   3  (bases 1 to 3672)
  CONSRTM   Clinical and Environmental Microbiology Branch: Whole genome
            sequencing antimicrobial resistance pathogens in the healthcare
            setting
  TITLE     Direct Submission
  JOURNAL   Submitted (04-OCT-2022) Division of Healthcare Quality Promotion, US
            Centers for Disease Control and Prevention, 1600 Clifton Rd,
            Atlanta, GA, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 45.0x
            Sequencing Technology :: Oxford Nanopore GridION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/18/2024 04:50:46
            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)                     :: 5,845
            CDSs (total)                      :: 5,720
            Genes (coding)                    :: 5,560
            CDSs (with protein)               :: 5,560
            Genes (RNA)                       :: 125
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 160
            CDSs (without protein)            :: 160
            Pseudo Genes (ambiguous residues) :: 0 of 160
            Pseudo Genes (frameshifted)       :: 59 of 160
            Pseudo Genes (incomplete)         :: 98 of 160
            Pseudo Genes (internal stop)      :: 37 of 160
            Pseudo Genes (multiple problems)  :: 29 of 160
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP114327.1.
            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..3672
                     /organism="Klebsiella variicola"
                     /mol_type="genomic DNA"
                     /strain="2022CK-00503"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:244366"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA"
                     /collection_date="2022-07-22"
     gene            198..344
                     /locus_tag="OEE48_RS29130"
                     /old_locus_tag="OEE48_29125"
     CDS             198..344
                     /locus_tag="OEE48_RS29130"
                     /old_locus_tag="OEE48_29125"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001487656.1"
                     /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_269136674.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPVRHAQAPLAAATGKKVYKRLLI
                     QSS"
                     /name="replication initiation protein"
     gene            complement(802..1083)
                     /locus_tag="OEE48_RS29135"
                     /old_locus_tag="OEE48_29130"
     CDS             complement(802..1083)
                     /locus_tag="OEE48_RS29135"
                     /old_locus_tag="OEE48_29130"
                     /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            1420..1713
                     /locus_tag="OEE48_RS29140"
                     /old_locus_tag="OEE48_29135"
     CDS             1420..1713
                     /locus_tag="OEE48_RS29140"
                     /old_locus_tag="OEE48_29135"
                     /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            1777..2079
                     /locus_tag="OEE48_RS29145"
                     /old_locus_tag="OEE48_29140"
     CDS             1777..2079
                     /locus_tag="OEE48_RS29145"
                     /old_locus_tag="OEE48_29140"
                     /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(2863..3264)
                     /locus_tag="OEE48_RS29150"
                     /old_locus_tag="OEE48_29145"
     CDS             complement(2863..3264)
                     /locus_tag="OEE48_RS29150"
                     /old_locus_tag="OEE48_29145"
                     /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_040242827.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGARNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(3264..3455)
                     /locus_tag="OEE48_RS29155"
                     /old_locus_tag="OEE48_29150"
     CDS             complement(3264..3455)
                     /locus_tag="OEE48_RS29155"
                     /old_locus_tag="OEE48_29150"
                     /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_040242829.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDDN"
                     /name="Rop family plasmid primer RNA-binding protein"
     Typing          3..307
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.693"
                     /coverage="97.0"
                     /evalue="4.71e-152"
ORIGIN
        1 ctgacgctca aatcagtggt ggcgaaaccc gacaggacta taaagatatc aggcgtttcc
       61 ccctgatggc tccctcgtgc gctctcctgt tcctgccatt cggtttaccg gtgtcattcc
      121 gctgttatgg ccgcgtttat ctcattccac gcctgacact cagttccggg aaggcagttc
      181 gctccaagct ggactgtatg cacgaacccc ccgttcagtc cgactgctgc gccttatccg
      241 gtaactatcg tcttgagtcc aacccggtaa gacacgcaca agcgccactg gcagcagcca
      301 ctggtaagaa ggtgtacaag agattactga tacagagttc ttgaagtctc agcccaacta
      361 cggctaaact gaaaggacag aatttggttt cagcggtctt gtacaccctg ttaccacggt
      421 tcagaagttc cccaacttac tgaaccctcg aaaaaaccgc ctccccaggc ggttttttcg
      481 tctcggcgag taagatacgc tttatcattc aaagcagtca aggaagaacc aagacagctc
      541 actcaccagc aggctccttt ttattggtag acacatgctt ctggacagta tcagcccctg
      601 cacaaagtac agcagctaac aagaaccatc cccagccatc aataccacga aaagctagga
      661 ctccagcaat agttacgcta atcaacggga acaataaaac cataaaggat ctcatacttt
      721 ctccagaggt tactttttta ataaagtccc taatccatcc gtactttcac ttggatggat
      781 tagcaactta cttattgata actaatgata atcttcaaga tcaacgtcta agacgtttgg
      841 ttcctcaacc ttgaaaacta cccgccagtt cccattaact tcaacggaat actcgccttt
      901 acgctccccc tttagggggt ggcaccctaa cgccctaacg tcaacaacgt cttgaatgca
      961 agttgctgtg cttagcgtag tcaaaatcat gcgaagtctt ttcgccatac tgggctgaat
     1021 accggcggtg ctaccttctt cagcaaagct cctaagtcct ttatgtttta tgttttttat
     1081 catctacaat ccccatattt ttttcgtcta tacctgtatc tatattttaa aatcatttta
     1141 attagttcca ttttgccccc ttgctttatt aaaacaattg acgtaagttt gttcttgagg
     1201 tcaatcacct catttgactt caacgaatcc taagggtaaa atactgcgcc ttgaaaaggc
     1261 cataaaagcc catacatacg cagtagcttt gactccaacg agtatcctaa agctgactgc
     1321 tttttttgtc aatatcatga acttgcacat tgtgcaatgc gcatactgaa aggcagtaat
     1381 ttttttgtat aatcaaatac aaaacaaaca gaggaaggca tgataaatct ttacgatcct
     1441 gttcatcctg gtgagtttat cagagaaatg ttcatggaac cgttcgaaat acctgccgca
     1501 gagttagccg ataaacttga tgtatcccag tctaccttaa gtagactgtt aaatgggaaa
     1561 acagacttaa gctatgaaat ggcacttaga ttgtcgaagg tcgtaggccg ctctgcagag
     1621 tcgtgggtaa acatgcagac ccaattcagc ctgtcaaaaa gtcgcaaatc tttagcggca
     1681 gagctggaac acttgcatcc aatgtttcca tgaaaaaagc ccgcagaacg cgggcttttg
     1741 ttacgtaaaa cacccagcag ccatcaggag gcaaccatgg tagatttcta tatctcagca
     1801 atcaaaatgg acagtgctgg tcagcacatc gaattcgtaa aagttcataa aataaaccga
     1861 gatggctcat ggaacactgc cggctcaatc agctctcgca aattcatcag cgagctgatc
     1921 agcatgggaa aagccagctt tatgacagtt gtaaagaaca gctctactgg taagtggaac
     1981 ctaggagcca aagtggaagc gatgaacgat ggctacataa ccacagatcc aaacaaaact
     2041 aaactcgata acttgggaaa tctgccgaaa tttgtctgat atgcaataac atccactaag
     2101 ttccagcaga atcccctccc taatgattta acataaagtc ataattgtac gcaccgctaa
     2161 aacggcctca tggcgtttct gacgggaaac cggtaaaaca ggcaacaaac cacccgaaaa
     2221 cccgccagaa acgcgcaggc tctgttttta cggcatgcat gagtatgcac gcaagtgcat
     2281 agctcgaaaa ttcacgccat tcagccaggg taagtcctgt ttccggcgtt ctttccatcc
     2341 gaaaacggtg aacggggacg caatttattg cgtggtcgtg agccgttgcc ggcgcagccg
     2401 gaaaacccgt tttcagcacg ttcaggaatc gggttcgtcg acggccggca atcacgttat
     2461 ggcaagtcgc cggacgactc accacacgat tcaccggcga ttcgactcgt gaattgaatc
     2521 aagagtcacc atgaacaaaa aacacccaaa gtgatgaatt gaatcaagag tcaattcatc
     2581 ataaccatat gataataaag cgtgattcac atatgaatcg tgggcaattc gtcagcgatt
     2641 cgccatagag tcgcccacga ctcggattca ccttacaaaa aataaaattg cgtaatttac
     2701 aatagataac taattgaaac taaaggtcta tctgcaaaat tttaattttg cgtggggtgt
     2761 gggtattttt cgtggtgagg agtgctcaga gatctggcga tttttgggaa ggttcaggaa
     2821 ctccccggaa tgaccggaga ggaaaactga agcatgacgc ggtcaggatt ttttccagaa
     2881 tttccaccat ggcgccgggg attcagttaa ttttgcctgg tgattttcaa gaaggagcat
     2941 ggcctgtttc aggctgtcaa tgtgcgaatc cttggacaaa agtaaggtgt tcaggtgttc
     3001 aatctcctgt ttcagatgac gaatcacctg ttcactctgg tcagcagagg ctgtatcacg
     3061 ctgttcagag acctgtccag aatggtgttc acccttcggt tgctcaaagg gaccaaagac
     3121 acgtaaaagc tctgaagtat ctaccatttt tgcattacgt gcaccgctac aggtggacag
     3181 gtcacctgct ttaattaacc tgtgcagtgt tgttctactc ttacccgtca gtcgggcagc
     3241 ctcactaata gacactctgg ccatcagtta tcatcctgta atgcatccag tctcgaggac
     3301 agtgtacgga aaagatgctc cgcatcatcg tggagtttct cacaaaggtc ggcctcgaca
     3361 tcaagatcaa gctcgttaag cttctccagc aggagcagag actgattctg gatgaattta
     3421 gccatgttca gcgctgtttt ctgttgtttc gtcataagag gcctcagagc gtcagtgctc
     3481 agtgtaggga tgttctcttt tccgcttcct cgctcactca gtcgctatgc tcctgccgtt
     3541 cggctgcggc gagcggcagg agcatgcgta taaaagctcg agaaaaccga gcggtcgcgt
     3601 gacggggaaa aggaaaggcc gctaagcggc cgtttttcca taggctccgc ccccctgaca
     3661 agcatcacaa ag
//
