LOCUS       NZ_CP114319             3672 bp    DNA     circular CON 18-FEB-2024
DEFINITION  Klebsiella variicola strain 2022CK-00501 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP114319
VERSION     NZ_CP114319.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN31261056
            Assembly: GCF_025676585.1
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-00501
  JOURNAL   Unpublished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 (12-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                   :: 97.0x
            Sequencing Technology :: Oxford Nanopore GridION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/18/2024 04:46:00
            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)                      :: 5,719
            Genes (coding)                    :: 5,559
            CDSs (with protein)               :: 5,559
            Genes (RNA)                       :: 126
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 15
            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)      :: 36 of 160
            Pseudo Genes (multiple problems)  :: 28 of 160
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP114319.1.
            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-00501"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:244366"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA"
                     /collection_date="2022-05-31"
     gene            complement(298..579)
                     /locus_tag="OGU15_RS29120"
                     /old_locus_tag="OGU15_29115"
     CDS             complement(298..579)
                     /locus_tag="OGU15_RS29120"
                     /old_locus_tag="OGU15_29115"
                     /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            916..1209
                     /locus_tag="OGU15_RS29125"
                     /old_locus_tag="OGU15_29120"
     CDS             916..1209
                     /locus_tag="OGU15_RS29125"
                     /old_locus_tag="OGU15_29120"
                     /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            1273..1575
                     /locus_tag="OGU15_RS29130"
                     /old_locus_tag="OGU15_29125"
     CDS             1273..1575
                     /locus_tag="OGU15_RS29130"
                     /old_locus_tag="OGU15_29125"
                     /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(2359..2760)
                     /locus_tag="OGU15_RS29135"
                     /old_locus_tag="OGU15_29130"
     CDS             complement(2359..2760)
                     /locus_tag="OGU15_RS29135"
                     /old_locus_tag="OGU15_29130"
                     /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(2760..2951)
                     /locus_tag="OGU15_RS29140"
                     /old_locus_tag="OGU15_29135"
     CDS             complement(2760..2951)
                     /locus_tag="OGU15_RS29140"
                     /old_locus_tag="OGU15_29135"
                     /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            3366..3512
                     /locus_tag="OGU15_RS29145"
                     /old_locus_tag="OGU15_29140"
     CDS             3366..3512
                     /locus_tag="OGU15_RS29145"
                     /old_locus_tag="OGU15_29140"
                     /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"
     Typing          3073..3475
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.79"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tcattcaaag cagtcaagga agaaccaaga cagctcactc accagcaggc tcctttttat
       61 tggtagacac atgcttctgg acagtatcag cccctgcaca aagtacagca gctaacaaga
      121 accatcccca gccatcaata ccacgaaaag ctaggactcc agcaatagtt acgctaatca
      181 acgggaacaa taaaaccata aaggatctca tactttctcc agaggttact tttttaataa
      241 agtccctaat ccatccgtac tttcacttgg atggattagc aacttactta ttgataacta
      301 atgataatct tcaagatcaa cgtctaagac gtttggttcc tcaaccttga aaactacccg
      361 ccagttccca ttaacttcaa cggaatactc gcctttacgc tcccccttta gggggtggca
      421 ccctaacgcc ctaacgtcaa caacgtcttg aatgcaagtt gctgtgctta gcgtagtcaa
      481 aatcatgcga agtcttttcg ccatactggg ctgaataccg gcggtgctac cttcttcagc
      541 aaagctccta agtcctttat gttttatgtt ttttatcatc tacaatcccc atattttttt
      601 cgtctatacc tgtatctata ttttaaaatc attttaatta gttccatttt gcccccttgc
      661 tttattaaaa caattgacgt aagtttgttc ttgaggtcaa tcacctcatt tgacttcaac
      721 gaatcctaag ggtaaaatac tgcgccttga aaaggccata aaagcccata catacgcagt
      781 agctttgact ccaacgagta tcctaaagct gactgctttt tttgtcaata tcatgaactt
      841 gcacattgtg caatgcgcat actgaaaggc agtaattttt ttgtataatc aaatacaaaa
      901 caaacagagg aaggcatgat aaatctttac gatcctgttc atcctggtga gtttatcaga
      961 gaaatgttca tggaaccgtt cgaaatacct gccgcagagt tagccgataa acttgatgta
     1021 tcccagtcta ccttaagtag actgttaaat gggaaaacag acttaagcta tgaaatggca
     1081 cttagattgt cgaaggtcgt aggccgctct gcagagtcgt gggtaaacat gcagacccaa
     1141 ttcagcctgt caaaaagtcg caaatcttta gcggcagagc tggaacactt gcatccaatg
     1201 tttccatgaa aaaagcccgc agaacgcggg cttttgttac gtaaaacacc cagcagccat
     1261 caggaggcaa ccatggtaga tttctatatc tcagcaatca aaatggacag tgctggtcag
     1321 cacatcgaat tcgtaaaagt tcataaaata aaccgagatg gctcatggaa cactgccggc
     1381 tcaatcagct ctcgcaaatt catcagcgag ctgatcagca tgggaaaagc cagctttatg
     1441 acagttgtaa agaacagctc tactggtaag tggaacctag gagccaaagt ggaagcgatg
     1501 aacgatggct acataaccac agatccaaac aaaactaaac tcgataactt gggaaatctg
     1561 ccgaaatttg tctgatatgc aataacatcc actaagttcc agcagaatcc cctccctaat
     1621 gatttaacat aaagtcataa ttgtacgcac cgctaaaacg gcctcatggc gtttctgacg
     1681 ggaaaccggt aaaacaggca acaaaccacc cgaaaacccg ccagaaacgc gcaggctctg
     1741 tttttacggc atgcatgagt atgcacgcaa gtgcatagct cgaaaattca cgccattcag
     1801 ccagggtaag tcctgtttcc ggcgttcttt ccatccgaaa acggtgaacg gggacgcaat
     1861 ttattgcgtg gtcgtgagcc gttgccggcg cagccggaaa acccgttttc agcacgttca
     1921 ggaatcgggt tcgtcgacgg ccggcaatca cgttatggca agtcgccgga cgactcacca
     1981 cacgattcac cggcgattcg actcgtgaat tgaatcaaga gtcaccatga acaaaaaaca
     2041 cccaaagtga tgaattgaat caagagtcaa ttcatcataa ccatatgata ataaagcgtg
     2101 attcacatat gaatcgtggg caattcgtca gcgattcgcc atagagtcgc ccacgactcg
     2161 gattcacctt acaaaaaata aaattgcgta atttacaata gataactaat tgaaactaaa
     2221 ggtctatctg caaaatttta attttgcgtg gggtgtgggt atttttcgtg gtgaggagtg
     2281 ctcagagatc tggcgatttt tgggaaggtt caggaactcc ccggaatgac cggagaggaa
     2341 aactgaagca tgacgcggtc aggatttttt ccagaatttc caccatggcg ccggggattc
     2401 agttaatttt gcctggtgat tttcaagaag gagcatggcc tgtttcaggc tgtcaatgtg
     2461 cgaatccttg gacaaaagta aggtgttcag gtgttcaatc tcctgtttca gatgacgaat
     2521 cacctgttca ctctggtcag cagaggctgt atcacgctgt tcagagacct gtccagaatg
     2581 gtgttcaccc ttcggttgct caaagggacc aaagacacgt aaaagctctg aagtatctac
     2641 catttttgca ttacgtgcac cgctacaggt ggacaggtca cctgctttaa ttaacctgtg
     2701 cagtgttgtt ctactcttac ccgtcagtcg ggcagcctca ctaatagaca ctctggccat
     2761 cagttatcat cctgtaatgc atccagtctc gaggacagtg tacggaaaag atgctccgca
     2821 tcatcgtgga gtttctcaca aaggtcggcc tcgacatcaa gatcaagctc gttaagcttc
     2881 tccagcagga gcagagactg attctggatg aatttagcca tgttcagcgc tgttttctgt
     2941 tgtttcgtca taagaggcct cagagcgtca gtgctcagtg tagggatgtt ctcttttccg
     3001 cttcctcgct cactcagtcg ctatgctcct gccgttcggc tgcggcgagc ggcaggagca
     3061 tgcgtataaa agctcgagaa aaccgagcgg tcgcgtgacg gggaaaagga aaggccgcta
     3121 agcggccgtt tttccatagg ctccgccccc ctgacaagca tcacaaagct gacgctcaaa
     3181 tcagtggtgg cgaaacccga caggactata aagatatcag gcgtttcccc ctgatggctc
     3241 cctcgtgcgc tctcctgttc ctgccattcg gtttaccggt gtcattccgc tgttatggcc
     3301 gcgtttatct cattccacgc ctgacactca gttccgggaa ggcagttcgc tccaagctgg
     3361 actgtatgca cgaacccccc gttcagtccg actgctgcgc cttatccggt aactatcgtc
     3421 ttgagtccaa cccggtaaga cacgcacaag cgccactggc agcagccact ggtaagaagg
     3481 tgtacaagag attactgata cagagttctt gaagtctcag cccaactacg gctaaactga
     3541 aaggacagaa tttggtttca gcggtcttgt acaccctgtt accacggttc agaagttccc
     3601 caacttactg aaccctcgaa aaaaccgcct ccccaggcgg ttttttcgtc tcggcgagta
     3661 agatacgctt ta
//
