LOCUS       NZ_CP114331             3672 bp    DNA     circular CON 18-FEB-2024
DEFINITION  Klebsiella variicola strain 2022CK-00504 plasmid unnamed3, complete
            sequence.
ACCESSION   NZ_CP114331
VERSION     NZ_CP114331.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN31152643
            Assembly: GCF_025579425.1
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-00504
  JOURNAL   Unpublished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                   :: 43.0x
            Sequencing Technology :: Oxford Nanopore GridION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/18/2024 04:37:12
            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)                     :: 5,851
            CDSs (total)                      :: 5,724
            Genes (coding)                    :: 5,561
            CDSs (with protein)               :: 5,561
            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)              :: 163
            CDSs (without protein)            :: 163
            Pseudo Genes (ambiguous residues) :: 0 of 163
            Pseudo Genes (frameshifted)       :: 59 of 163
            Pseudo Genes (incomplete)         :: 102 of 163
            Pseudo Genes (internal stop)      :: 37 of 163
            Pseudo Genes (multiple problems)  :: 30 of 163
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP114331.1.
            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-00504"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:244366"
                     /plasmid="unnamed3"
                     /geo_loc_name="USA"
                     /collection_date="2022-07-25"
     gene            join(3537..3672,1..158)
                     /locus_tag="OEE49_RS29150"
                     /old_locus_tag="OEE49_29145"
     CDS             join(3537..3672,1..158)
                     /locus_tag="OEE49_RS29150"
                     /old_locus_tag="OEE49_29145"
                     /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            222..524
                     /locus_tag="OEE49_RS29155"
                     /old_locus_tag="OEE49_29150"
     CDS             222..524
                     /locus_tag="OEE49_RS29155"
                     /old_locus_tag="OEE49_29150"
                     /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(1308..1709)
                     /locus_tag="OEE49_RS29160"
                     /old_locus_tag="OEE49_29155"
     CDS             complement(1308..1709)
                     /locus_tag="OEE49_RS29160"
                     /old_locus_tag="OEE49_29155"
                     /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(1709..1900)
                     /locus_tag="OEE49_RS29165"
                     /old_locus_tag="OEE49_29160"
     CDS             complement(1709..1900)
                     /locus_tag="OEE49_RS29165"
                     /old_locus_tag="OEE49_29160"
                     /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            2315..2461
                     /locus_tag="OEE49_RS29170"
                     /old_locus_tag="OEE49_29165"
     CDS             2315..2461
                     /locus_tag="OEE49_RS29170"
                     /old_locus_tag="OEE49_29165"
                     /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(2919..3200)
                     /locus_tag="OEE49_RS29175"
                     /old_locus_tag="OEE49_29170"
     CDS             complement(2919..3200)
                     /locus_tag="OEE49_RS29175"
                     /old_locus_tag="OEE49_29170"
                     /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"
     Typing          2022..2424
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.79"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 ggaaaacaga cttaagctat gaaatggcac ttagattgtc gaaggtcgta ggccgctctg
       61 cagagtcgtg ggtaaacatg cagacccaat tcagcctgtc aaaaagtcgc aaatctttag
      121 cggcagagct ggaacacttg catccaatgt ttccatgaaa aaagcccgca gaacgcgggc
      181 ttttgttacg taaaacaccc agcagccatc aggaggcaac catggtagat ttctatatct
      241 cagcaatcaa aatggacagt gctggtcagc acatcgaatt cgtaaaagtt cataaaataa
      301 accgagatgg ctcatggaac actgccggct caatcagctc tcgcaaattc atcagcgagc
      361 tgatcagcat gggaaaagcc agctttatga cagttgtaaa gaacagctct actggtaagt
      421 ggaacctagg agccaaagtg gaagcgatga acgatggcta cataaccaca gatccaaaca
      481 aaactaaact cgataacttg ggaaatctgc cgaaatttgt ctgatatgca ataacatcca
      541 ctaagttcca gcagaatccc ctccctaatg atttaacata aagtcataat tgtacgcacc
      601 gctaaaacgg cctcatggcg tttctgacgg gaaaccggta aaacaggcaa caaaccaccc
      661 gaaaacccgc cagaaacgcg caggctctgt ttttacggca tgcatgagta tgcacgcaag
      721 tgcatagctc gaaaattcac gccattcagc cagggtaagt cctgtttccg gcgttctttc
      781 catccgaaaa cggtgaacgg ggacgcaatt tattgcgtgg tcgtgagccg ttgccggcgc
      841 agccggaaaa cccgttttca gcacgttcag gaatcgggtt cgtcgacggc cggcaatcac
      901 gttatggcaa gtcgccggac gactcaccac acgattcacc ggcgattcga ctcgtgaatt
      961 gaatcaagag tcaccatgaa caaaaaacac ccaaagtgat gaattgaatc aagagtcaat
     1021 tcatcataac catatgataa taaagcgtga ttcacatatg aatcgtgggc aattcgtcag
     1081 cgattcgcca tagagtcgcc cacgactcgg attcacctta caaaaaataa aattgcgtaa
     1141 tttacaatag ataactaatt gaaactaaag gtctatctgc aaaattttaa ttttgcgtgg
     1201 ggtgtgggta tttttcgtgg tgaggagtgc tcagagatct ggcgattttt gggaaggttc
     1261 aggaactccc cggaatgacc ggagaggaaa actgaagcat gacgcggtca ggattttttc
     1321 cagaatttcc accatggcgc cggggattca gttaattttg cctggtgatt ttcaagaagg
     1381 agcatggcct gtttcaggct gtcaatgtgc gaatccttgg acaaaagtaa ggtgttcagg
     1441 tgttcaatct cctgtttcag atgacgaatc acctgttcac tctggtcagc agaggctgta
     1501 tcacgctgtt cagagacctg tccagaatgg tgttcaccct tcggttgctc aaagggacca
     1561 aagacacgta aaagctctga agtatctacc atttttgcat tacgtgcacc gctacaggtg
     1621 gacaggtcac ctgctttaat taacctgtgc agtgttgttc tactcttacc cgtcagtcgg
     1681 gcagcctcac taatagacac tctggccatc agttatcatc ctgtaatgca tccagtctcg
     1741 aggacagtgt acggaaaaga tgctccgcat catcgtggag tttctcacaa aggtcggcct
     1801 cgacatcaag atcaagctcg ttaagcttct ccagcaggag cagagactga ttctggatga
     1861 atttagccat gttcagcgct gttttctgtt gtttcgtcat aagaggcctc agagcgtcag
     1921 tgctcagtgt agggatgttc tcttttccgc ttcctcgctc actcagtcgc tatgctcctg
     1981 ccgttcggct gcggcgagcg gcaggagcat gcgtataaaa gctcgagaaa accgagcggt
     2041 cgcgtgacgg ggaaaaggaa aggccgctaa gcggccgttt ttccataggc tccgcccccc
     2101 tgacaagcat cacaaagctg acgctcaaat cagtggtggc gaaacccgac aggactataa
     2161 agatatcagg cgtttccccc tgatggctcc ctcgtgcgct ctcctgttcc tgccattcgg
     2221 tttaccggtg tcattccgct gttatggccg cgtttatctc attccacgcc tgacactcag
     2281 ttccgggaag gcagttcgct ccaagctgga ctgtatgcac gaaccccccg ttcagtccga
     2341 ctgctgcgcc ttatccggta actatcgtct tgagtccaac ccggtaagac acgcacaagc
     2401 gccactggca gcagccactg gtaagaaggt gtacaagaga ttactgatac agagttcttg
     2461 aagtctcagc ccaactacgg ctaaactgaa aggacagaat ttggtttcag cggtcttgta
     2521 caccctgtta ccacggttca gaagttcccc aacttactga accctcgaaa aaaccgcctc
     2581 cccaggcggt tttttcgtct cggcgagtaa gatacgcttt atcattcaaa gcagtcaagg
     2641 aagaaccaag acagctcact caccagcagg ctccttttta ttggtagaca catgcttctg
     2701 gacagtatca gcccctgcac aaagtacagc agctaacaag aaccatcccc agccatcaat
     2761 accacgaaaa gctaggactc cagcaatagt tacgctaatc aacgggaaca ataaaaccat
     2821 aaaggatctc atactttctc cagaggttac ttttttaata aagtccctaa tccatccgta
     2881 ctttcacttg gatggattag caacttactt attgataact aatgataatc ttcaagatca
     2941 acgtctaaga cgtttggttc ctcaaccttg aaaactaccc gccagttccc attaacttca
     3001 acggaatact cgcctttacg ctcccccttt agggggtggc accctaacgc cctaacgtca
     3061 acaacgtctt gaatgcaagt tgctgtgctt agcgtagtca aaatcatgcg aagtcttttc
     3121 gccatactgg gctgaatacc ggcggtgcta ccttcttcag caaagctcct aagtccttta
     3181 tgttttatgt tttttatcat ctacaatccc catatttttt tcgtctatac ctgtatctat
     3241 attttaaaat cattttaatt agttccattt tgcccccttg ctttattaaa acaattgacg
     3301 taagtttgtt cttgaggtca atcacctcat ttgacttcaa cgaatcctaa gggtaaaata
     3361 ctgcgccttg aaaaggccat aaaagcccat acatacgcag tagctttgac tccaacgagt
     3421 atcctaaagc tgactgcttt ttttgtcaat atcatgaact tgcacattgt gcaatgcgca
     3481 tactgaaagg cagtaatttt tttgtataat caaatacaaa acaaacagag gaaggcatga
     3541 taaatcttta cgatcctgtt catcctggtg agtttatcag agaaatgttc atggaaccgt
     3601 tcgaaatacc tgccgcagag ttagccgata aacttgatgt atcccagtct accttaagta
     3661 gactgttaaa tg
//
