LOCUS       NZ_CP089389             3514 bp    DNA     circular CON 17-FEB-2024
DEFINITION  Klebsiella variicola subsp. variicola strain KPN692 plasmid
            pKPN692_4, complete sequence.
ACCESSION   NZ_CP089389
VERSION     NZ_CP089389.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN23286210
            Assembly: GCF_021228835.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella variicola subsp. variicola
  ORGANISM  Klebsiella variicola subsp. variicola
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3514)
  AUTHORS   Hawkey,J., Wyres,K.L., Judd,L.M. and Holt,K.E.
  TITLE     Whole genome sequencing of Klebsiella pneumoniae complex isolates
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3514)
  AUTHORS   Hawkey,J., Wyres,K.L., Judd,L.M. and Holt,K.E.
  TITLE     Direct Submission
  JOURNAL   Submitted (11-DEC-2021) Department of Infectious Diseases, Monash
            University, Level 2, The Burnet Institute, Melbourne, VIC 3004,
            Australia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.4.8
            Assembly Name                     :: KPN692
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 5x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/17/2024 08:03:56
            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)                     :: 5,626
            CDSs (total)                      :: 5,505
            Genes (coding)                    :: 5,328
            CDSs (with protein)               :: 5,328
            Genes (RNA)                       :: 121
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 177
            CDSs (without protein)            :: 177
            Pseudo Genes (ambiguous residues) :: 0 of 177
            Pseudo Genes (frameshifted)       :: 86 of 177
            Pseudo Genes (incomplete)         :: 102 of 177
            Pseudo Genes (internal stop)      :: 38 of 177
            Pseudo Genes (multiple problems)  :: 42 of 177
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP089389.1.
            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..3514
                     /organism="Klebsiella variicola subsp. variicola"
                     /mol_type="genomic DNA"
                     /strain="KPN692"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /sub_species="variicola"
                     /db_xref="taxon:2590157"
                     /plasmid="pKPN692_4"
                     /geo_loc_name="Australia: Melbourne"
                     /lat_lon="37.8136 S 144.9631 E"
                     /collection_date="2018-03-26"
                     /collected_by="Microbiology Unit & Department of Infectious
                     Diseases, Alfred Hospital"
     gene            124..315
                     /locus_tag="LUX40_RS28000"
                     /old_locus_tag="LUX40_28000"
     CDS             124..315
                     /locus_tag="LUX40_RS28000"
                     /old_locus_tag="LUX40_28000"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_071008427.1"
                     /translation="MLKKNEIILIKSCGNSKTKIFLRGVDEGLMIDASFEDIKFAINNN
                     LHDLLGIQAETTKLKLTK"
                     /name="hypothetical protein"
     gene            complement(729..944)
                     /locus_tag="LUX40_RS28005"
                     /old_locus_tag="LUX40_28005"
     CDS             complement(729..944)
                     /locus_tag="LUX40_RS28005"
                     /old_locus_tag="LUX40_28005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015328239.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_015328239.1"
                     /translation="MTELEKQLLSALEQLQQDYSRRLDEWESAFEEWRKMSGLMQRENA
                     ALSERVSGLSRQVQSLSEQLRRLSTG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(951..1448)
                     /locus_tag="LUX40_RS28010"
                     /old_locus_tag="LUX40_28010"
     CDS             complement(951..1448)
                     /locus_tag="LUX40_RS28010"
                     /old_locus_tag="LUX40_28010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020325392.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_015328238.1"
                     /translation="MSSLLTASRDFEEKSKAQQQLTEERLKAAFSKHENVVKSELNASA
                     KRINDAISAHEQGMNAAMQSNRLSVLRMVGRTWLTITMVSGLLFASLSGVLWYQGNRIA
                     ANLAEIRQQRDTLSKLHMQTWGVTYLENRNGRFLVLPEGMKAETGRTVDNKTRNAVKLV
                     RE"
                     /name="MbeB family mobilization protein"
     gene            complement(<1489..2187)
                     /locus_tag="LUX40_RS28230"
                     /pseudo=""
     CDS             complement(<1489..2187)
                     /locus_tag="LUX40_RS28230"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(2126..2467)
                     /locus_tag="LUX40_RS28020"
                     /old_locus_tag="LUX40_28020"
     CDS             complement(2126..2467)
                     /locus_tag="LUX40_RS28020"
                     /old_locus_tag="LUX40_28020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006122514.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_071599364.1"
                     /translation="MADKRNKMLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPTR
                     AGRLPSISPALLRQLAGMGNNLNQIARKVNAGGAGHDRVQIVAALMAIDAGLERLRHAV
                     LEKGPDDDC"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          complement(2553..2725)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="89.655"
                     /coverage="100.0"
                     /evalue="9.54e-56"
     Typing          2650..3196
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="92.909"
                     /coverage="90.0"
                     /evalue="0.0"
     Typing          complement(614..2136)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2133..2446)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.453"
                     /coverage="99.0"
                     /evalue="9.860000000000001e-59"
ORIGIN
        1 tttttttatt tttttgatga tatgtacaaa atcagtggtt aggaataatc ttagcagcct
       61 taacaaacac acacaaaaac aacgataatg attcatctga cgacaacaaa caatgacaat
      121 gtcatgttaa aaaaaaatga aattatctta ataaaatcat gtggtaactc aaaaacaaaa
      181 atttttttac gaggtgtgga tgagggactc atgattgatg caagttttga agatataaaa
      241 tttgctatca acaataacct ccacgatctt ctcggaatcc aagccgaaac cacaaaacta
      301 aaactaacaa agtgatacag cccctgaagc atgaaggatc gaaataaagc caccgattta
      361 ccataacgtc ttcttacccg caccgcgccg gaggcactca gggcgtttct gatggctgac
      421 gggcaaaagg tggtggcaag tacaccgaaa accaccagaa acgcacctga tttattttac
      481 gcatatgcat cacttattca catcactgca tagccggtga tttcggttaa aaaagactct
      541 ctgtgtgctg aaatcgcaga aaatggccat gatccccgtc acgctcaggc cacctgagac
      601 gggcgtttat cagtctccat actccctgtc accatgagat aatgtgcgtt gccgttccgg
      661 taccagatct gctgtcttct ctggttcctt ttccgttgtt tgcccgtatc gctgttgctc
      721 aatctcattc agcctgtcga taaccggcgc agctgctcgc tcaaactctg cacctgcctg
      781 ctcaagcccg acacgcgctc gctcagcgcc gcgttctccc gttgcataag accagacatc
      841 ttccgccatt cctcgaaggc gctctcccac tcgtccagcc ttctcgagta gtcctgctgt
      901 agctgctcta acgcgctcag caattgtttt tccagttccg tcattctgct ctactcccgt
      961 accagcttca ccgcgttccg cgtcttgttg tccaccgtcc ggcccgtttc ggctttcatc
     1021 ccctccggca gcaccagaaa ccgtccgttg cggttctcca gataggtcac gccccacgtc
     1081 tgcatgtgca gtttcgacag cgtatctctc tgctgcctga tttccgccag gttcgccgct
     1141 atccggttcc cctggtacca cagcaccccg ctcaggctgg cgaacagcag ccctgacacc
     1201 atggtgatgg tcagccacgt ccgcccgacc attcgcagca cgctcagccg gttcgactgc
     1261 atcgccgcgt tcatcccctg ttcgtgggcg ctgatggcgt cgttgattct cttcgcgctt
     1321 gcgttcagtt ccgatttgac aacgttctcg tgcttgctga atgcggcttt cagcctctct
     1381 tcggtaagct gctgctgtgc tttcgatttc tcctcgaagt ccctcgaggc cgttaaaaga
     1441 ctgctcataa atggctcccc tcagtcggat atttcgcccc ccgtccgggt cggcaatgct
     1501 gatactgttt tttgtggttc tgaccacctc aaaaccggcc gctgtgagcg cccctgtgac
     1561 gtcatcacgc gttttcagct ctcctgatga ggctaacatc agcaaacccc gtgtaatcgt
     1621 ctctgcggct tcctgcttcg tttctggcag tcctgaaggc gtgaccagcg cccgccggtt
     1681 ctccgggtcg ttcggatcat gtagccccag cctgccgttg accactgtct gccacgcatc
     1741 gatgcgcggc cggtcggcac gatcgtaata cggctggagg cgtttccccg tcagtaattc
     1801 ggtattgggg atcagaaaat tcagctcaag acgacccttg tctgcgtgtt ccacccacag
     1861 aatgctgtac tggtctttat cgagtccggg catcagaacc cgctcaaagc tggccatcag
     1921 tttttcacgc tgacccggcg gcaggtccgc ctccgcgaat gacagcaccc cggaggtata
     1981 ttttttcaca tacggcgacg catcaatcag ctcccggact tcttccggct tcccctgcag
     2041 gacgctggca ccttcacgct gccggtcttt acccagaaga taatccacag gaccggcgcc
     2101 cccgccgcga ccccggggat ggaatttaac aatcatcgtc cggccctttt tccagtacgg
     2161 catgccgcaa ccgttccaga ccggcatcga tcgccatcag cgctgccacg atctgcaccc
     2221 ggtcatgacc ggcaccaccg gcgttcactt tccgggcgat ctggttcagg ttattgccca
     2281 tgccggcaag ctgacgcagc agcgcgggcg aaatcgaggg aagcctgccg gcgcgtgtcg
     2341 gtttctcatc aaggcaggtc tggcgcatcc acgccgccag ttgttttccg tcgcaccgct
     2401 caagcaaccg ccggtgttcg tcttccgtca cccacatcgt gagcatcttg ttgcgtttat
     2461 ctgccagaat cgcctcctga taacgccgtg acggacggga aagcctttcc cggtcggcgc
     2521 ggggttggac aagccgcagg cgcgtcagtg gggtttcggg gcgcagccct gaaccagtca
     2581 cgtagcgcta gcggagtgta tactggctta gtatgttggc atgagtgcga taatcaggaa
     2641 agcgccttat gcggcagaag aaaaatgctg cagcagagcg taagcagaat atgcgataca
     2701 gaagatattc cgcttcctcg ctcactgact cgctgcgctc ggtcgttcgg ctgcggcgag
     2761 cggtgccggc ttacgggcgg ggcggaaatt tccaggaaga taccaggaag aaacttaaca
     2821 gggaagcgat gaggccgcgg cgaagccgtt tttccatagg ctccgccccc ctgacaagca
     2881 tcacaaaatc tgacgctcaa atcagtggcg gcgaaacccg acaggactat aaagatccca
     2941 ggcgtttccc cctggtagct ccctcgtgcg ctctcctgtt cctgcctttc ggtttaccgg
     3001 tgtcattccg ctgttatggc cgcgtttatc tcattccacg cctgacactc agttccggga
     3061 aggcagttcg ctccaagctg gactgtatgc acgaaccccc cgttcagtcc gactgctgcg
     3121 ccttatccgg taactatcgt cttgagtcca acccggaaag acacgccaaa gcgccactgg
     3181 cagcagccac tggtaacagg attagcagag cgagttaatg taggtgatgc tacagagttc
     3241 ttgaagtggt ggcctaacta cggctacact ggaaggacag tatttggtat ctgcgctctg
     3301 ctgaagccag ttacctggtt aagcagttcc ccaactgact taaccttcga aaaaccgccc
     3361 tgcaaggcgg ttttttcgtt tacagagcaa gagattacga cgaggctgaa tgaatctcaa
     3421 gatttcattt agcctgccac ccgatcattc aaagttttgg cgtagttctg acccgctccc
     3481 cgtgatttgt tacataccca ccacagggca ttag
//
