LOCUS       NZ_CP129619             3483 bp    DNA     circular CON 09-AUG-2023
DEFINITION  Klebsiella oxytoca strain NMI2990_17 plasmid p3, complete sequence.
ACCESSION   NZ_CP129619
VERSION     NZ_CP129619.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35742518
            Assembly: GCF_030343625.2
KEYWORDS    RefSeq.
SOURCE      Klebsiella oxytoca
  ORGANISM  Klebsiella oxytoca
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3483)
  AUTHORS   Izdebski,R., Biedrzycka,M., Urbanowicz,P. and Gniadkowski,M.
  TITLE     Genomic epidemiology of VIM-producing Klebsiella oxytoca species
            complex in Poland, 2009-2019
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3483)
  AUTHORS   Izdebski,R., Biedrzycka,M., Urbanowicz,P. and Gniadkowski,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (06-JUL-2023) Molecular Microbiology, National Medicines
            Institute, Chelmska 30/34, Warsaw 00-725, Poland
REFERENCE   3  (bases 1 to 3483)
  AUTHORS   Izdebski,R., Biedrzycka,M., Urbanowicz,P. and Gniadkowski,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (20-JUN-2023) Molecular Microbiology, National Medicines
            Institute, Chelmska 30/34, Warsaw 00-725, Poland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 50.0x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 08/04/2023 09:06:49
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 6,064
            CDSs (total)                      :: 5,944
            Genes (coding)                    :: 5,827
            CDSs (with protein)               :: 5,827
            Genes (RNA)                       :: 120
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 117
            CDSs (without protein)            :: 117
            Pseudo Genes (ambiguous residues) :: 0 of 117
            Pseudo Genes (frameshifted)       :: 51 of 117
            Pseudo Genes (incomplete)         :: 76 of 117
            Pseudo Genes (internal stop)      :: 27 of 117
            Pseudo Genes (multiple problems)  :: 31 of 117
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP129619.1.
            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..3483
                     /organism="Klebsiella oxytoca"
                     /mol_type="genomic DNA"
                     /strain="NMI2990_17"
                     /isolation_source="clinical sample"
                     /host="Homo sapiens"
                     /db_xref="taxon:571"
                     /plasmid="p3"
                     /geo_loc_name="Poland:Bialystok"
                     /lat_lon="53.0807 N 23.0844 E"
                     /collection_date="2017-04-07"
                     /collected_by="National Medicines Institute"
                     /genotype="ST145"
     gene            complement(868..1137)
                     /locus_tag="QTO83_RS30300"
                     /old_locus_tag="QTO83_030295"
     CDS             complement(868..1137)
                     /locus_tag="QTO83_RS30300"
                     /old_locus_tag="QTO83_030295"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001549726.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="conjugal transfer protein TraD"
                     /protein_id="WP_045368012.1"
                     /translation="MSKSTEQQIAELQNRLQTLRTKKAKQDKREETRQKIILGAEVAKV
                     LNSKPEEVNKALLLGLLSKINELDEEEKAEFTRIGMDILQQWKS"
                     /name="conjugal transfer protein TraD"
     gene            complement(1143..1427)
                     /locus_tag="QTO83_RS30305"
                     /old_locus_tag="QTO83_030300"
     CDS             complement(1143..1427)
                     /locus_tag="QTO83_RS30305"
                     /old_locus_tag="QTO83_030300"
                     /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_045368014.1"
                     /translation="MNYQNKNLLSDEEKAFYQKYFEKALEDLLEKKNKEIKEEFEKITN
                     DLILEEVDRFINIHGASITNRHNFFKRDYFASREIFENVFNDRINKNRW"
                     /name="hypothetical protein"
     gene            complement(1429..1758)
                     /locus_tag="QTO83_RS30310"
                     /old_locus_tag="QTO83_030305"
     CDS             complement(1429..1758)
                     /locus_tag="QTO83_RS30310"
                     /old_locus_tag="QTO83_030305"
                     /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_045368017.1"
                     /translation="MAKLEQKEYLELFDKIFKQHSYIYEENRCHYDRFIYDVFTFIGDN
                     LEEEITKELEIYKGSEDYDYYYDSFYTVLFQSEMAMVEPILKDYLKNKIFSVENGYLNF
                     DCVEG"
                     /name="hypothetical protein"
     gene            1986..3137
                     /gene="mobQ"
                     /locus_tag="QTO83_RS30315"
                     /old_locus_tag="QTO83_030310"
     CDS             1986..3137
                     /gene="mobQ"
                     /locus_tag="QTO83_RS30315"
                     /old_locus_tag="QTO83_030310"
                     /inference="COORDINATES: protein motif:HMM:NF041496.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobQ family relaxase"
                     /protein_id="WP_289192565.1"
                     /translation="MAIFHMSFKILKRSEGKSSVYLSAYQNREKTIDNRTGATWDYSKK
                     EGFFGSTILSPAGTPADLVADSASLWNAVEAAENRKDAQLCRYLDIAIPKELDDGQKKQ
                     LVLDYCQENFVDYGMIADIAFHDLNSHNPHAHVMLTLRTVSPAGFGNKEREWNKKENIE
                     AWRENWEIIANGRLKKYGHKSRIDSRSLEEQKEEAERKAVFAKTPQAKAVWIAKSIRLD
                     RTPMTRIHRHNWKEGQKLRKLEQEEKRILYKKASLTYHQMTKPIEPEQSMKIEKTPIAQ
                     KIKSIFETAKNKLNSKIADFFKPKPKKEEFQSSYEIDELGEHILKKDADNWDQKNNDKI
                     KKQVRENKLKEEADRQRYKEEDQKLKNTSKPTQQNNNSRKLKR"
                     /name="mobQ"
     gene            complement(3169..3318)
                     /locus_tag="QTO83_RS30320"
                     /old_locus_tag="QTO83_030315"
     CDS             complement(3169..3318)
                     /locus_tag="QTO83_RS30320"
                     /old_locus_tag="QTO83_030315"
                     /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_157843882.1"
                     /translation="MKKKKLQKKKRRNKNKHSKFFKMLIKSVEEAVKIHKGELEPARVT
                     ILKM"
                     /name="hypothetical protein"
ORIGIN
        1 gcttcaccca aaggtctccc ctaccgattt ttgaacataa ctccctaaaa agtaaggatc
       61 atttcaaaaa atcagtaagg gcgatttgtg tgattgcaaa gtttggactt caccacaaag
      121 ttctagacta ttgagcttaa caaccgtttc cagtcgttgg caccctctta caccctctag
      181 atacagttca tagcctttca cttgcgacag ctaaccccat tttaaacaac catttggctg
      241 ttatggctgg gctttctcat agcctaccaa tcaatcactg ttcaccaaaa aaaccttaga
      301 actcgcctcc caggtcggca attcgtaagc acccttctat tgccaacaac caacatcgat
      361 ccggaccctc ttgattccac agatcacgac ctgacacaat aggctaattt ggttgcttaa
      421 gaacttgaaa aagatggctt ttttttggga attgtaaccg aggggtattt gactttttgc
      481 gaattgtgag ttaacttctt acttacaaat cgtaatcgag tgccttcaac cactagatta
      541 caagactcga aaagtcgcca aacttttctt gtccctcaaa accgacgaaa gtcggttttg
      601 ttgtatctgg taccagttat aacttatctg cttgttctgt caatagttgt tcaaaaaatt
      661 tgatccaaaa aaaccaacgg aagatcctca ccttttcccg ttccgggccc tgtatctcga
      721 acggagaggc actcaggtac ccaacaatca acaaacccac ccataagccc tgagagcctc
      781 tcagagcctt tttaagacct ccaggcaagc ctggcaaccc ttcacagtaa aaaaccagcc
      841 ggtggctggt tcttcactgt tcacggttta cgatttccat tgctgcaata tgtccattcc
      901 aattcgtgta aactctgctt tttcttcttc gtctaattca ttgattttac tgagcaaacc
      961 caataaaaga gccttattaa cttcttcggg tttactattt aaaacctttg caacttctgc
     1021 acccaatatt attttttgtc tggtttcttc tcttttatct tgttttgctt tttttgttct
     1081 taatgtttgt agcctatttt gtaactctgc tatttgttgt tctgttgatt tactcatatt
     1141 atttaccacc tatttttatt tatacgatca ttaaacacat tctcaaatat ttcccttgaa
     1201 gcgaaataat ctcgtttaaa aaagttatgc ctgtttgtta tacttgcacc gtggatattt
     1261 ataaacctat caacttcttc aagaattaaa tcattagtta ttttttcaaa ctcctcttta
     1321 atttctttat tctttttttc taataaatct tcaagtgctt tttcaaaata tttttgataa
     1381 aaagcttttt cctcatcgct taataaattc ttattttgat aattcatatt aaccctccac
     1441 acagtcaaaa tttaaatatc cattttccac agaaaaaatt ttattcttta gatagtcttt
     1501 tagaattggt tctaccattg ccatttcact ttgaaaaagc acagtataaa aactatcata
     1561 atagtaatcg taatcctctg atcctttata tatttcaagt tcttttgtta tttcctcctc
     1621 taaattatcc ccgataaaag taaaaacatc ataaataaat ctatcgtaat gacatctatt
     1681 ttcttcgtaa atataactat gctgtttgaa tattttatca aacaactcta aatattcttt
     1741 ttgttctaat ttcgccatat taaacctcct gtatttattt tattatttaa tacctccgtt
     1801 atttacttta gtcaaatata acttaatatt tatatatata ttgggcgaag ccggttttat
     1861 tagttcatta tctttttgag ccgtggcgaa aattagataa tgcccactta tacattgctt
     1921 cgcaatgtgt ggtccctgcg gggctaaaac ccaaaatcaa aagacaaaaa aataaggggg
     1981 tagccgtggc tatatttcat atgagtttta aaatattaaa aagatcggaa ggcaaatcgt
     2041 cggtttattt atctgcatat caaaacagag aaaagacaat agataatcga accggggcaa
     2101 cctgggacta ttccaagaaa gagggatttt tcggctctac tatcctctcc cctgccggca
     2161 cacctgccga tcttgtggct gactctgcca gcctatggaa tgccgtagaa gcggctgaga
     2221 accgcaagga tgcccagcta tgccgttatc tggacatagc catacccaag gaactggacg
     2281 acggccagaa gaagcaactt gtcctcgatt actgccagga gaattttgta gattacggca
     2341 tgattgccga catagcattt catgacctga atagtcataa tcctcatgcc catgtaatgt
     2401 taactttaag gactgtaagc cctgctgggt ttggaaacaa agaaagagaa tggaataaaa
     2461 aggagaacat agaagcctgg agggaaaact gggaaataat cgcaaatggg agattaaaaa
     2521 aatatggtca taaatctcgt attgattccc gttcattaga agaacaaaaa gaagaagctg
     2581 aaaggaaggc agtttttgca aaaactcctc aagcaaaagc tgtatggatt gctaaatcta
     2641 tccgtttgga cagaacgcca atgaccagga tacacaggca taattggaaa gagggacaga
     2701 aattaagaaa attggagcag gaagaaaaaa ggattttata taaaaaagcg tcgttaacat
     2761 atcaccaaat gactaaaccg attgagcctg agcaatctat gaaaatagaa aaaacgccaa
     2821 tagctcagaa aataaaatct atattcgaaa ctgccaaaaa taaattaaat tctaaaattg
     2881 ctgatttctt caaacctaaa cctaaaaaag aagaatttca aagtagttat gaaattgacg
     2941 aattgggaga acatatcttg aaaaaagatg ctgataattg ggatcagaaa aacaatgata
     3001 aaattaaaaa acaggttcgt gagaacaagc tgaaagaaga agccgacagg cagaggtata
     3061 aagaagagga tcaaaaatta aaaaatactt ctaagcctac tcagcaaaat aacaatagca
     3121 gaaaattaaa gcgatagtat atatcgctat atactacaat atactatact acattttcaa
     3181 aattgttacc ctggctggct ctaattctcc tttatgaatt ttcacagctt cctctactga
     3241 cttaataagc attttaaaaa atttactatg cttattttta tttcttcttt ttttcttctg
     3301 caatttcttt tttttcataa tttcaccaga aaattaaaat cgccaatttt tttcttcgaa
     3361 ctctatttat tttattcttc agtattgttt ttaaatattt ctataatgct ccgcactata
     3421 ttacagatct atattgtttt gctctattaa taataaagac ctttgtgttc agcccttagc
     3481 agg
//
