LOCUS       NZ_CP114323             3672 bp    DNA     circular CON 18-FEB-2024
DEFINITION  Klebsiella variicola strain 2022CK-00502 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP114323
VERSION     NZ_CP114323.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN31152641
            Assembly: GCF_025579405.1
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-00502
  JOURNAL   Unpublished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                   :: 68.0x
            Sequencing Technology :: Oxford Nanopore GridION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/18/2024 04:38:42
            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)                     :: 5,850
            CDSs (total)                      :: 5,723
            Genes (coding)                    :: 5,563
            CDSs (with protein)               :: 5,563
            Genes (RNA)                       :: 127
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 16
            Pseudo Genes (total)              :: 160
            CDSs (without protein)            :: 160
            Pseudo Genes (ambiguous residues) :: 0 of 160
            Pseudo Genes (frameshifted)       :: 58 of 160
            Pseudo Genes (incomplete)         :: 99 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
            CP114323.1.
            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-00502"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:244366"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA"
                     /collection_date="2022-07-14"
     gene            complement(155..457)
                     /locus_tag="OEE46_RS29150"
                     /old_locus_tag="OEE46_29145"
     CDS             complement(155..457)
                     /locus_tag="OEE46_RS29150"
                     /old_locus_tag="OEE46_29145"
                     /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(521..814)
                     /locus_tag="OEE46_RS29155"
                     /old_locus_tag="OEE46_29150"
     CDS             complement(521..814)
                     /locus_tag="OEE46_RS29155"
                     /old_locus_tag="OEE46_29150"
                     /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            1151..1432
                     /locus_tag="OEE46_RS29160"
                     /old_locus_tag="OEE46_29155"
     CDS             1151..1432
                     /locus_tag="OEE46_RS29160"
                     /old_locus_tag="OEE46_29155"
                     /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(1890..2036)
                     /locus_tag="OEE46_RS29165"
                     /old_locus_tag="OEE46_29160"
     CDS             complement(1890..2036)
                     /locus_tag="OEE46_RS29165"
                     /old_locus_tag="OEE46_29160"
                     /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            2451..2642
                     /locus_tag="OEE46_RS29170"
                     /old_locus_tag="OEE46_29165"
     CDS             2451..2642
                     /locus_tag="OEE46_RS29170"
                     /old_locus_tag="OEE46_29165"
                     /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"
     gene            2642..3043
                     /locus_tag="OEE46_RS29175"
                     /old_locus_tag="OEE46_29170"
     CDS             2642..3043
                     /locus_tag="OEE46_RS29175"
                     /old_locus_tag="OEE46_29170"
                     /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"
     Typing          complement(1928..2330)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.79"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cgtttctggc gggttttcgg gtggtttgtt gcctgtttta ccggtttccc gtcagaaacg
       61 ccatgaggcc gttttagcgg tgcgtacaat tatgacttta tgttaaatca ttagggaggg
      121 gattctgctg gaacttagtg gatgttattg catatcagac aaatttcggc agatttccca
      181 agttatcgag tttagttttg tttggatctg tggttatgta gccatcgttc atcgcttcca
      241 ctttggctcc taggttccac ttaccagtag agctgttctt tacaactgtc ataaagctgg
      301 cttttcccat gctgatcagc tcgctgatga atttgcgaga gctgattgag ccggcagtgt
      361 tccatgagcc atctcggttt attttatgaa cttttacgaa ttcgatgtgc tgaccagcac
      421 tgtccatttt gattgctgag atatagaaat ctaccatggt tgcctcctga tggctgctgg
      481 gtgttttacg taacaaaagc ccgcgttctg cgggcttttt tcatggaaac attggatgca
      541 agtgttccag ctctgccgct aaagatttgc gactttttga caggctgaat tgggtctgca
      601 tgtttaccca cgactctgca gagcggccta cgaccttcga caatctaagt gccatttcat
      661 agcttaagtc tgttttccca tttaacagtc tacttaaggt agactgggat acatcaagtt
      721 tatcggctaa ctctgcggca ggtatttcga acggttccat gaacatttct ctgataaact
      781 caccaggatg aacaggatcg taaagattta tcatgccttc ctctgtttgt tttgtatttg
      841 attatacaaa aaaattactg cctttcagta tgcgcattgc acaatgtgca agttcatgat
      901 attgacaaaa aaagcagtca gctttaggat actcgttgga gtcaaagcta ctgcgtatgt
      961 atgggctttt atggcctttt caaggcgcag tattttaccc ttaggattcg ttgaagtcaa
     1021 atgaggtgat tgacctcaag aacaaactta cgtcaattgt tttaataaag caagggggca
     1081 aaatggaact aattaaaatg attttaaaat atagatacag gtatagacga aaaaaatatg
     1141 gggattgtag atgataaaaa acataaaaca taaaggactt aggagctttg ctgaagaagg
     1201 tagcaccgcc ggtattcagc ccagtatggc gaaaagactt cgcatgattt tgactacgct
     1261 aagcacagca acttgcattc aagacgttgt tgacgttagg gcgttagggt gccaccccct
     1321 aaagggggag cgtaaaggcg agtattccgt tgaagttaat gggaactggc gggtagtttt
     1381 caaggttgag gaaccaaacg tcttagacgt tgatcttgaa gattatcatt agttatcaat
     1441 aagtaagttg ctaatccatc caagtgaaag tacggatgga ttagggactt tattaaaaaa
     1501 gtaacctctg gagaaagtat gagatccttt atggttttat tgttcccgtt gattagcgta
     1561 actattgctg gagtcctagc ttttcgtggt attgatggct ggggatggtt cttgttagct
     1621 gctgtacttt gtgcaggggc tgatactgtc cagaagcatg tgtctaccaa taaaaaggag
     1681 cctgctggtg agtgagctgt cttggttctt ccttgactgc tttgaatgat aaagcgtatc
     1741 ttactcgccg agacgaaaaa accgcctggg gaggcggttt tttcgagggt tcagtaagtt
     1801 ggggaacttc tgaaccgtgg taacagggtg tacaagaccg ctgaaaccaa attctgtcct
     1861 ttcagtttag ccgtagttgg gctgagactt caagaactct gtatcagtaa tctcttgtac
     1921 accttcttac cagtggctgc tgccagtggc gcttgtgcgt gtcttaccgg gttggactca
     1981 agacgatagt taccggataa ggcgcagcag tcggactgaa cggggggttc gtgcatacag
     2041 tccagcttgg agcgaactgc cttcccggaa ctgagtgtca ggcgtggaat gagataaacg
     2101 cggccataac agcggaatga caccggtaaa ccgaatggca ggaacaggag agcgcacgag
     2161 ggagccatca gggggaaacg cctgatatct ttatagtcct gtcgggtttc gccaccactg
     2221 atttgagcgt cagctttgtg atgcttgtca ggggggcgga gcctatggaa aaacggccgc
     2281 ttagcggcct ttccttttcc ccgtcacgcg accgctcggt tttctcgagc ttttatacgc
     2341 atgctcctgc cgctcgccgc agccgaacgg caggagcata gcgactgagt gagcgaggaa
     2401 gcggaaaaga gaacatccct acactgagca ctgacgctct gaggcctctt atgacgaaac
     2461 aacagaaaac agcgctgaac atggctaaat tcatccagaa tcagtctctg ctcctgctgg
     2521 agaagcttaa cgagcttgat cttgatgtcg aggccgacct ttgtgagaaa ctccacgatg
     2581 atgcggagca tcttttccgt acactgtcct cgagactgga tgcattacag gatgataact
     2641 gatggccaga gtgtctatta gtgaggctgc ccgactgacg ggtaagagta gaacaacact
     2701 gcacaggtta attaaagcag gtgacctgtc cacctgtagc ggtgcacgta atgcaaaaat
     2761 ggtagatact tcagagcttt tacgtgtctt tggtcccttt gagcaaccga agggtgaaca
     2821 ccattctgga caggtctctg aacagcgtga tacagcctct gctgaccaga gtgaacaggt
     2881 gattcgtcat ctgaaacagg agattgaaca cctgaacacc ttacttttgt ccaaggattc
     2941 gcacattgac agcctgaaac aggccatgct ccttcttgaa aatcaccagg caaaattaac
     3001 tgaatccccg gcgccatggt ggaaattctg gaaaaaatcc tgaccgcgtc atgcttcagt
     3061 tttcctctcc ggtcattccg gggagttcct gaaccttccc aaaaatcgcc agatctctga
     3121 gcactcctca ccacgaaaaa tacccacacc ccacgcaaaa ttaaaatttt gcagatagac
     3181 ctttagtttc aattagttat ctattgtaaa ttacgcaatt ttattttttg taaggtgaat
     3241 ccgagtcgtg ggcgactcta tggcgaatcg ctgacgaatt gcccacgatt catatgtgaa
     3301 tcacgcttta ttatcatatg gttatgatga attgactctt gattcaattc atcactttgg
     3361 gtgttttttg ttcatggtga ctcttgattc aattcacgag tcgaatcgcc ggtgaatcgt
     3421 gtggtgagtc gtccggcgac ttgccataac gtgattgccg gccgtcgacg aacccgattc
     3481 ctgaacgtgc tgaaaacggg ttttccggct gcgccggcaa cggctcacga ccacgcaata
     3541 aattgcgtcc ccgttcaccg ttttcggatg gaaagaacgc cggaaacagg acttaccctg
     3601 gctgaatggc gtgaattttc gagctatgca cttgcgtgca tactcatgca tgccgtaaaa
     3661 acagagcctg cg
//
