LOCUS       NZ_CP135512             3511 bp    DNA     circular CON 07-OCT-2023
DEFINITION  Klebsiella pneumoniae strain isolateK plasmid pIsolateK_D, complete
            sequence.
ACCESSION   NZ_CP135512
VERSION     NZ_CP135512.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN37529182
            Assembly: GCF_032343715.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3511)
  AUTHORS   Lerminiaux,N., Fakharuddin,K., Mulvey,M.R. and Mataseje,L.
  TITLE     Do we still need Illumina sequencing data?: Evaluating Oxford
            Nanopore Technologies R10.4.1 flow cells and v14 library prep kits
            for Gram negative bacteria whole genome assemblies
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3511)
  AUTHORS   Lerminiaux,N., Fakharuddin,K., Mulvey,M.R. and Mataseje,L.
  TITLE     Direct Submission
  JOURNAL   Submitted (25-SEP-2023) National Microbiology Lab, Public Health
            Agency of Canada, 1015 Arlington Street, Winnipeg R3E3R2, Canada
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 21-JUN-2023
            Assembly Method :: Trycycler v. v0.5.0; Flye v. v2.9.2; Raven v.
            v1.8.1; Miniasm/minipolish v. v0.3_r179
            Assembly Name                     :: isolateK
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 229X
            Sequencing Technology :: Oxford Nanopore MinION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/07/2023 13:32:04
            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)                     :: 5,641
            CDSs (total)                      :: 5,515
            Genes (coding)                    :: 5,398
            CDSs (with protein)               :: 5,398
            Genes (RNA)                       :: 126
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 117
            CDSs (without protein)            :: 117
            Pseudo Genes (ambiguous residues) :: 0 of 117
            Pseudo Genes (frameshifted)       :: 42 of 117
            Pseudo Genes (incomplete)         :: 73 of 117
            Pseudo Genes (internal stop)      :: 20 of 117
            Pseudo Genes (multiple problems)  :: 15 of 117
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP135512.1.
            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..3511
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="isolateK"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pIsolateK_D"
                     /geo_loc_name="Canada: Ottawa"
                     /collection_date="2020"
     gene            1..>114
                     /locus_tag="RRL08_RS28165"
                     /old_locus_tag="RRL08_28165"
                     /pseudo=""
     CDS             1..>114
                     /locus_tag="RRL08_RS28165"
                     /old_locus_tag="RRL08_28165"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /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="replication initiation protein"
                     /name="replication initiation protein"
     gene            complement(576..758)
                     /locus_tag="RRL08_RS28170"
                     /old_locus_tag="RRL08_28170"
     CDS             complement(576..758)
                     /locus_tag="RRL08_RS28170"
                     /old_locus_tag="RRL08_28170"
                     /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_016265984.1"
                     /translation="MLTFIGVVVVAVIAFKLFMLFFSSSESAVERATRKYMENPTSANY
                     KIMVATRMRNEKKRG"
                     /name="hypothetical protein"
     gene            complement(1153..1368)
                     /locus_tag="RRL08_RS28175"
                     /old_locus_tag="RRL08_28175"
     CDS             complement(1153..1368)
                     /locus_tag="RRL08_RS28175"
                     /old_locus_tag="RRL08_28175"
                     /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(1375..1872)
                     /locus_tag="RRL08_RS28180"
                     /old_locus_tag="RRL08_28180"
     CDS             complement(1375..1872)
                     /locus_tag="RRL08_RS28180"
                     /old_locus_tag="RRL08_28180"
                     /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(<1913..2611)
                     /locus_tag="RRL08_RS28185"
                     /old_locus_tag="RRL08_28185"
                     /pseudo=""
     CDS             complement(<1913..2611)
                     /locus_tag="RRL08_RS28185"
                     /old_locus_tag="RRL08_28185"
                     /inference="COORDINATES: protein motif:HMM:NF015397.3"
                     /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(2550..2891)
                     /locus_tag="RRL08_RS28190"
                     /old_locus_tag="RRL08_28190"
     CDS             complement(2550..2891)
                     /locus_tag="RRL08_RS28190"
                     /old_locus_tag="RRL08_28190"
                     /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(2977..3150)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.5600000000000002e-86"
     Typing          2..333
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="80.682"
                     /coverage="100.0"
                     /evalue="1.5e-63"
     Typing          3117..3511
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.96"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(1038..2560)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2557..2870)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.453"
                     /coverage="99.0"
                     /evalue="9.860000000000001e-59"
ORIGIN
        1 atgcacaaac cccccgttca gtccgactgc tgcgccttac ccggtaacta tcatcttgag
       61 tccaacccga gaaagcacga caaagcgcca ctggcagcag ccactggtaa ctgggatata
      121 cgagagagag attcagaggt cttgaagtat gggcctgact gcggctacac tgaaagaaca
      181 gttttggtat ctgcggtctc gtatacccag ttacctggtt aagcagttcc ccaactgact
      241 taaccttcga tcaaaccacc tccccaggtg gttttttcgt tttcagagca agagattacg
      301 actgaaacga caggatcaca agaagatcat taactccgag agtagtaact cccaccatgt
      361 ttgcctatca acacacttag gaaacattac ttgcgtttag ttatacgact tctagctctc
      421 cataacagat cctcattttc tgctgatgga tttcgacggt atcgttcctc cgctttccgt
      481 actccatatt caggaaacac cctgacagca accatttgta taaagacata acacaccaaa
      541 agtaaaaata aaaaaccaat aaactcaaac atatatcacc ctcttttctt ctcatttctc
      601 atgcgtgtag ccaccattat tttatagtta gcactcgtag ggttctccat atatttacgg
      661 gtagcacgtt cgacggcaga ttcggatgaa ctaaaaaaaa gcataaataa tttaaatgca
      721 ataacggcga ctaccactac accaataaat gtaagcatca ctcttactcc tgttatcaac
      781 attaaacata acatctctta cccgcaccgc gccggaggca ctcagggcgt ttctgatggc
      841 tgacgggcaa aaggtggtgg caagtacacc gaaaaccacc agaaacgcac ctgatttatt
      901 ttacgcatat gcatcactta ttcacatcac tgcatagccg gtgatttcgg ttaaaaaaga
      961 ctctctgtgt gctgaaatcg cagaaaatgg ccatgatccc cgtcacgctc aggccacctg
     1021 agacgggcgt ttatcagtct ccatactccc tgtcaccatg agataatgtg cgttgccgtt
     1081 ccggtaccag atctgctgtc ttctctggtt ccttttccgt tgtttgcccg tatcgctgtt
     1141 gctcaatctc attcagcctg tcgataaccg gcgcagctgc tcgctcaaac tctgcacctg
     1201 cctgctcaag cccgacacgc gctcgctcag cgccgcgttc tcccgttgca taagaccaga
     1261 catcttccgc cattcctcga aggcgctctc ccactcgtcc agccttctcg agtagtcctg
     1321 ctgtagctgc tctaacgcgc tcagcaattg tttttccagt tccgtcattc tgctctactc
     1381 ccgtaccagc ttcaccgcgt tccgcgtctt gttgtccacc gtccggcccg tttcggcttt
     1441 catcccctcc ggcagcacca gaaaccgtcc gttgcggttc tccagatagg tcacgcccca
     1501 cgtctgcatg tgcagtttcg acagcgtatc tctctgctgc ctgatttccg ccaggttcgc
     1561 cgctatccgg ttcccctggt accacagcac cccgctcagg ctggcgaaca gcagccctga
     1621 caccatggtg atggtcagcc acgtccgccc gaccattcgc agcacgctca gccggttcga
     1681 ctgcatcgcc gcgttcatcc cctgttcgtg ggcgctgatg gcgtcgttga ttctcttcgc
     1741 gcttgcgttc agttccgatt tgacaacgtt ctcgtgcttg ctgaatgcgg ctttcagcct
     1801 ctcttcggta agctgctgct gtgctttcga tttctcctcg aagtccctcg aggccgttaa
     1861 aagactgctc ataaatggct cccctcagtc ggatatttcg ccccccgtcc gggtcggcaa
     1921 tgctgatact gttttttgtg gttctgacca cctcaaaacc ggccgctgtg agcgcccctg
     1981 tgacgtcatc acgcgttttc agctctcctg atgaggctaa catcagcaaa ccccgtgtaa
     2041 tcgtctctgc ggcttcctgc ttcgtttctg gcagtcctga aggcgtgacc agcgcccgcc
     2101 ggttctccgg gtcgttcgga tcatgtagcc ccagcctgcc gttgaccact gtctgccacg
     2161 catcgatgcg cggccggtcg gcacgatcgt aatacggctg gaggcgtttc cccgtcagta
     2221 attcggtatt ggggatcaga aaattcagct caagacgacc cttgtctgcg tgttccaccc
     2281 acagaatgct gtactggtct ttatcgagtc cgggcatcag aacccgctca aagctggcca
     2341 tcagtttttc acgctgaccc ggcggcaggt ccgcctccgc gaatgacagc accccggagg
     2401 tatatttttt cacatacggc gacgcatcaa tcagctcccg gacttcttcc ggcttcccct
     2461 gcaggacgct ggcaccttca cgctgccggt ctttacccag aagataatcc acaggaccgg
     2521 cgcccccgcc gcgaccccgg ggatggaatt taacaatcat cgtccggccc tttttccagt
     2581 acggcatgcc gcaaccgttc cagaccggca tcgatcgcca tcagcgctgc cacgatctgc
     2641 acccggtcat gaccggcacc accggcgttc actttccggg cgatctggtt caggttattg
     2701 cccatgccgg caagctgacg cagcagcgcg ggcgaaatcg agggaagcct gccggcgcgt
     2761 gtcggtttct catcaaggca ggtctggcgc atccacgccg ccagttgttt tccgtcgcac
     2821 cgctcaagca accgccggtg ttcgtcttcc gtcacccaca tcgtgagcat cttgttgcgt
     2881 ttatctgcca gaatcgcctc ctgataacgc cgtgacggac gggaaagcct ttcccggtcg
     2941 gcgcggggtt ggacaagccg caggcgcgtc agtggggttt cggggcgcag ccctgaacca
     3001 gtcacgtagc gctagcggag tgtatactgg cttactatgt tggcacggat gaggatgtca
     3061 gtgaagtgct tcatgtggca ggagaaaaaa ggcggcaccg gcgcgtcagc agaatatgtg
     3121 atacaggata tattccgctt cctcgctcac tgactcgcta cgctcggtcg ttcgactgcg
     3181 gcgagcggaa atggcttacg aacggggcgg agatttcctg gaagatgcca ggaagatact
     3241 taacagggaa gcgatagggc cgcggcgaag ccgtttttcc ataggctccg cccccctgac
     3301 aagcatcacg aaatctgacg ctcaaatcag tggtggcgaa acccgacagg actataaaga
     3361 taccaggcgt ttccccctgg cggctccctc gtgcgctctc ctgttcctgc ctttcggttt
     3421 accggtgtca ttccgctgtt atggccgcgt ttatctcatt ccacgcctga cactcagttc
     3481 cgggtaggca gttcgctcca agctggactg t
//
