LOCUS       NZ_CP048393             5101 bp    DNA     circular CON 20-JUN-2024
DEFINITION  Klebsiella pneumoniae strain S01 plasmid pKPS01_p4, complete
            sequence.
ACCESSION   NZ_CP048393
VERSION     NZ_CP048393.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN13968567
            Assembly: GCF_023612215.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5101)
  AUTHORS   Zhu,Y., Lu,J., Zhao,J., Velkov,T. and Li,J.
  TITLE     Whole genome sequencing and genome-scale metabolic modelling of
            NDM-producing MDR Klebsiella pneumoniae S01
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5101)
  AUTHORS   Zhu,Y., Lu,J., Zhao,J., Velkov,T. and Li,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (02-FEB-2020) Faculty of Medicine, Nursing and Health
            Sciences, Monash University, 19 Innovation Walk, Clayton, VIC 3800,
            Australia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Assembly Name                     :: FADDI_Monash_KPS01_1.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 320.0x
            Sequencing Technology             :: PacBio RSII; Illumina HiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_023612215.1-RS_2024_06_20
            Annotation Date                   :: 06/20/2024 03:47:50
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,510
            CDSs (total)                      :: 5,386
            Genes (coding)                    :: 5,245
            CDSs (with protein)               :: 5,245
            Genes (RNA)                       :: 124
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 141
            CDSs (without protein)            :: 141
            Pseudo Genes (ambiguous residues) :: 0 of 141
            Pseudo Genes (frameshifted)       :: 55 of 141
            Pseudo Genes (incomplete)         :: 91 of 141
            Pseudo Genes (internal stop)      :: 17 of 141
            Pseudo Genes (multiple problems)  :: 18 of 141
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP048393.1.
            Bacteria and source DNA available from Laboratory of Antimicrobial
            Systems Pharmacology in Biomedicine Discovery Institute, 19
            Innovation Walk , Monash University, Melbourne, Australia.
            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..5101
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="S01"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pKPS01_p4"
                     /geo_loc_name="Australia: Melbourne"
                     /collection_date="2016-06"
     gene            complement(join(5001..5101,1..109))
                     /locus_tag="GZH33_RS27385"
                     /old_locus_tag="GZH33_27895"
     CDS             complement(join(5001..5101,1..109))
                     /locus_tag="GZH33_RS27385"
                     /old_locus_tag="GZH33_27895"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004196825.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_074377680.1"
                     /translation="MEWVIGGFVVLIVLGAIFKPSRCDVCGTGFKKKYYTWTIEGKKQH
                     LCPNCNSKMSRRVSNQRFTDRFGR"
                     /name="hypothetical protein"
     gene            complement(147..413)
                     /locus_tag="GZH33_RS27390"
                     /old_locus_tag="GZH33_27900"
     CDS             complement(147..413)
                     /locus_tag="GZH33_RS27390"
                     /old_locus_tag="GZH33_27900"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000262326.1"
                     /GO_function="GO:0008657 - DNA topoisomerase type II
                     (double strand cut, ATP-hydrolyzing) inhibitor activity
                     [Evidence IEA]; GO:0042803 - protein homodimerization
                     activity [Evidence IEA]"
                     /GO_process="GO:0030541 - plasmid partitioning [Evidence
                     IEA]; GO:0051290 - protein heterotetramerization [Evidence
                     IEA]"
                     /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_064183949.1"
                     /translation="MVWTINYSERALKSLRKMDKQTARRILDFMDLRIAVAEDPRQSGK
                     PLKGELGEFWRYRVGDYRILCEILDDELVILAATIGHRREVYD"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            complement(397..621)
                     /locus_tag="GZH33_RS27395"
                     /old_locus_tag="GZH33_27905"
     CDS             complement(397..621)
                     /locus_tag="GZH33_RS27395"
                     /old_locus_tag="GZH33_27905"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000879771.1"
                     /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="TraY domain-containing protein"
                     /protein_id="WP_064183950.1"
                     /translation="MLAIRLSAEIESRLDLLAKKTGRTKTFYAREAILAHLEDLEDYYL
                     SAETAARVRRGDEAVHSSEAVRKSLGLDD"
                     /name="TraY domain-containing protein"
     gene            780..1028
                     /locus_tag="GZH33_RS27400"
                     /old_locus_tag="GZH33_27910"
     CDS             780..1028
                     /locus_tag="GZH33_RS27400"
                     /old_locus_tag="GZH33_27910"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000312658.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_074384346.1"
                     /translation="MAWYIDSKNVKENKVEAANEKYKKIWKPGEKPSFAGIYRCQSCGY
                     EDLINRQCTKLPPCSNCEEKGHKNNTWKLLVRAVDAE"
                     /name="hypothetical protein"
     gene            complement(1776..2177)
                     /locus_tag="GZH33_RS27405"
                     /old_locus_tag="GZH33_27915"
     CDS             complement(1776..2177)
                     /locus_tag="GZH33_RS27405"
                     /old_locus_tag="GZH33_27915"
                     /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_117080885.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQEKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(2177..2368)
                     /locus_tag="GZH33_RS27410"
                     /old_locus_tag="GZH33_27920"
     CDS             complement(2177..2368)
                     /locus_tag="GZH33_RS27410"
                     /old_locus_tag="GZH33_27920"
                     /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_004187666.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2786..2936
                     /locus_tag="GZH33_RS27415"
                     /old_locus_tag="GZH33_27925"
                     /pseudo=""
     CDS             2786..2936
                     /locus_tag="GZH33_RS27415"
                     /old_locus_tag="GZH33_27925"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001396189.1"
                     /note="frameshifted; 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(3183..4052)
                     /locus_tag="GZH33_RS27420"
                     /old_locus_tag="GZH33_27930"
     CDS             complement(3183..4052)
                     /locus_tag="GZH33_RS27420"
                     /old_locus_tag="GZH33_27930"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015387122.1"
                     /GO_function="GO:0003676 - nucleic acid binding [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="WYL domain-containing protein"
                     /protein_id="WP_110192038.1"
                     /translation="MKSIRNQSFIEERLWYIEWLLMMRGWLSRIDLMDKFGIKGAAASR
                     DIKRYKEQSDENLYLDHRVKRYVADLDKFKPVYETSEELIFSKLTDLDESKSLGAGSPL
                     IETIPRLAEINPKDITGITRAILNMNVLKIAYCSMTSGTSEKKIVPHSMFHNDLKTYVR
                     CYDLGRNRFLDLVVGRILEILGEDGSAPAECLREFDDDWNTYISLELVVHPRIQHKKAI
                     ESDMQMTDGVKVIEVRKSLAQYWLRRWCVDCSATAKMTDKAFQLHLRNSSVINGVNGAF
                     PGVNNHID"
                     /name="WYL domain-containing protein"
     gene            4680..4910
                     /locus_tag="GZH33_RS27425"
                     /old_locus_tag="GZH33_27935"
     CDS             4680..4910
                     /locus_tag="GZH33_RS27425"
                     /old_locus_tag="GZH33_27935"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003539161.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_074377679.1"
                     /translation="MALYKNGNALQHSNHQAFDAELGPGTQAPNPGIYRCVNCGDEIGI
                     AKGHTLPPQNHHQHSNGLPIKWKLLVCAIQK"
                     /name="hypothetical protein"
     Typing          2605..3112
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.205"
                     /coverage="99.0"
                     /evalue="2.75e-180"
ORIGIN
        1 aggtgtaata ttttttctta aaacctgtac cacaaacatc acagcgactt ggtttaaaaa
       61 tcgcaccaag aacaataagt acaacaaaac caccaataac ccattccata aaatccctct
      121 caatgaaaaa gcccgctatg cgggcttcag tcgtaaactt cgcgtcggtg gccgattgta
      181 gccgcaagga tgaccagctc atcatctagg atttcacaca gaatacgata atcgcctacc
      241 cgataacgcc agaattcacc taactcacct ttgagcggtt tccctgactg acggggatct
      301 tctgcaacag caatgcgtaa gtccataaaa tccaaaattc gtcgtgcagt ctgcttgtcc
      361 atcttacgta acgattttaa cgcccgttcg gaatagttaa tcgtccagac caagtgactt
      421 cctcacggct tcagacgaat gcacagcctc atcaccacgc cgaacgcgtg cggcagtttc
      481 tgctgaaaga tagtaatctt ccagatcttc caagtgtgca agtatcgctt cccgcgcata
      541 gaacgtcttt gttctgccgg tttttttcgc cagtaaatca agacgagact caatttcagc
      601 agacagccgg atagccaaca tgcagacctc ctgatctcaa aatgctatac atgtatatca
      661 agtataaaac agttagatcg aaaggcaaaa aaataatctg cacagagttg agaaatgcac
      721 cacaagacca caataattaa gcgggtaaat gtccttcaaa cttatacgga aacgacataa
      781 tggcatggta tatcgatagc aaaaacgtca aagaaaacaa agttgaagcc gcaaatgaaa
      841 aatataaaaa aatctggaaa ccaggggaaa aaccatcttt tgcaggaatc tatcgctgtc
      901 agtcatgtgg atatgaagat ttaatcaacc gccagtgcac caagctccca ccatgcagca
      961 attgcgagga aaaagggcat aaaaacaaca catggaaact gctggtaaga gcggttgatg
     1021 cggaatagtc aaaccggatt gaacataaca ccttaattgt acgcaccgct aaaacggcct
     1081 cagggcgttt ctgacgggaa accggtaaaa caggcaacaa accacccgaa aacccgccag
     1141 aaacgcgcag gctctgtttt tacggcatgc atgagtatgc acgcaagtgc atagcgcgaa
     1201 aattcacgcc attcagccag ggtaagtcct gtttccggcg ttcttcccat ccgaaaacgg
     1261 tgaacgggga cgcaatttat tgcgtggccg tgaagcgttg ccggcgcagc cggaaaacag
     1321 gttttcagca cgttcaggaa tcgtgttcgt cgacggccgg caatcacgtt atggcaagtc
     1381 gccggacgac tcaccacacg attcaccggc gactcttcac tagagtcgta cccagagtcg
     1441 ccgcgtctaa aaaacaacca aacggggagt cgtgtctaga gtcgggtcgt tattaactta
     1501 ttgtttttat agtcctgagt cgttaccgac tctatgacga ctcgccgggg actctatgac
     1561 gagtcgtcat agagtcggat ctatgtaaat aaaatttaaa aaacaaaatt tcaggaaagt
     1621 aaacaactga tattaaatac aaatctgcaa aattttaatt ttgcgtagtg tgtgggtatt
     1681 tttagtcgtg aggagcgttc agagatctgg cgatttttgg gaaggttcag gaactccccg
     1741 ggatgaccgg agaggaaaac tcaagcatgg caggatcagg attttttcca gaatttccac
     1801 catggcgccg gggattcagt taatttttcc tggtgatttt caagaaggag catggcctgt
     1861 ttcaggctgt caatgtgcga atccttggac aaaagtaagg tattcaggtg ttcaatctcc
     1921 tgtttcagat gacgaatcac ctgttcactc tggtcagcag aggctgtatc acgctgttca
     1981 gagacctgtc cagaatggtg ttcacccttc ggttgttcaa agggaccaaa gacacgtaaa
     2041 agctctgaag tatctaccat ttttgcattg cgttcaccgc tacaggtgga caggtcacct
     2101 gctttaatta acctgtgcag tgtcgttcta ctcttacccg tcagtcgggc agcctcacta
     2161 atagacactc tggccatcag ttaccatcct gtaatgcatc cagtctcgag gacagtgtac
     2221 ggaaaagatg ctccgcatca tcgtggagtt tctcacaaag gtcggcttcg acatcgagat
     2281 caagctcgtt aagcttctcc agcaggagca gagactgatt ctggatgaat ttagccatgt
     2341 tcagcgctgt tttctgttgt ttcgtcataa gaggcctcag agcgtcagtg ctcagtgtag
     2401 ggatgttctc ttttccgctt cctcgctcac tcagtcgcta cgctcctgcc gttcggctgc
     2461 ggcgagcggc aggagcatgc gtataaaagc tcgagaaaac cgagcggtcg cgtaacgggg
     2521 aaaaggaaag gccgcaaggc ggcccttttt ttccataggc tccgcccccc tgacaagcat
     2581 cacagaatct gacgctcaaa tcagtggtgg cgaaacccga caggactata aagataccag
     2641 gagtttcccc ctgatggctc cctcgtgcgc tctcctgttc ctgcctttcg gtttgccggt
     2701 gtcattccgc tgttatggcc gcgtttatct cattccacgc ctgacactca gttccgggta
     2761 ggcagttcgc tccaagctgg actgtatgca cgaacccccc gttcagtccg actgctgcgc
     2821 cttgatccgg taactatcaa cttgagtcca acccggaaag acacgacaaa gcgccactgg
     2881 cagcagccac tggtaaacag gatgtgcgag agatgtattt agagttcttg aagtgaagac
     2941 ctaactgagg ctacactgga aggacggatt tggtgacacg tctcgcacaa gactgttacc
     3001 acggttcaga aacttgccgg ttaatgaacc ttcgaaaaac caccttgccg ggtggttttt
     3061 tcgtttacag agcaagagat tacgcgcaga aaaaaaggat ctcaagaaga tccttttcag
     3121 aacgacgaat accatcattt catcgacagc agttcttcat catccacgag caaacaacac
     3181 aatcaatcga tatggttgtt taccccaggg aaagcaccat tgactccatt aataacgctg
     3241 gaatttctca ggtgaagctg aaaagcttta tcggtcatct ttgccgtcgc agaacaatct
     3301 acacaccatc gacgtagcca gtactgagcc agtgactttc tgacttcaat cactttcaca
     3361 ccgtcagtca tttgcatgtc actctcaata gctttcttat gctgaatcct aggatgaacg
     3421 accaactcca aagaaatata tgtgttccaa tcatcgtcaa actctctcaa acattccgca
     3481 ggagcagacc catcctcacc cagaatctca agaattcgcc caacaacgag atctaaaaac
     3541 cgatttcgcc cgagatcata gcaacgaacg tatgttttaa gatcattatg aaacattgaa
     3601 tggggaacga ttttcttctc tgatgttcct gaagtcattg agcaataagc tattttaaga
     3661 acattcatat ttagaatcgc ccgagtaatc cccgttatat ccttcgggtt tatttcagcc
     3721 aagcgaggga tagtttcaat cagtggggac cccgcaccta aagacttcga ctcatctaga
     3781 tccgtaagct ttgaaaagat gagttcctcg gaggtttcgt aaactggctt aaatttatca
     3841 agatcagcaa catatctctt aaccctatga tctaaatata aattctcatc actctgttct
     3901 ttatatcttt taatgtcacg actggccgca gctcccttaa tcccaaattt atccattaag
     3961 tctatgcggg ataaccatcc tcgcatcatc aaaagccatt ctatatacca tagtctctct
     4021 tctataaaac tctgatttct aatgcttttc ataagataac aatcctagaa attattgtac
     4081 cgatcaaaag ttgaactaat cttgaagatc acttatcatt aagataacag tagcatactt
     4141 cacgatagga gaaggatgaa aatggcaaca aacaaaccat atggcgatgg ccatcgcatt
     4201 ggcgcagtaa agcaacgttc tcaattccag acccccacag ggttatgggc aaagcgagat
     4261 tcaacaacag ggaggattat ggatgtgaaa caggatggaa ccccattcaa aggggtaagg
     4321 aaggaaaagt gattgggtta gcctgtacca ccagaactaa ccctaacaaa ccgtacgcaa
     4381 aagcggcgct tgagtaccac ctcaagtgct tttataagcc agccactaga tttgttgagt
     4441 gctacagtac aattctgagc gcaaaaatca acattcaagt ggcgaaattt gggaaatgcg
     4501 acatgcagac agacgagtct caggcataca tttttcgccc ttacataacg gtaaagggta
     4561 aacggatcac ccgtcctaac gggggaatgt tcaagatccc gattaatcgg gaaaagaaaa
     4621 aatagcaatc ttcgcagccg tcaggctgcg acccaatacg tttatgcaag gaaaacagaa
     4681 tggcactcta taaaaacggc aatgctttac aacacagcaa tcatcaggct tttgatgctg
     4741 aattagggcc tggtacccaa gcccctaatc ctggaatcta ccggtgcgtt aactgtggag
     4801 atgaaatcgg gatagctaaa gggcatacct tacctccaca aaaccatcac caacattcaa
     4861 acgggcttcc aatcaaatgg aaattgctcg tctgtgctat ccagaagtga tgtttgaaca
     4921 aaaagccctg cggggctttt tttacgcctt ctgccggtaa ctatttacca taacccccta
     4981 attatcagca tcgagacaga ctatcgtcca aacctgtcag taaatcgttg gttactgacc
     5041 cttcggctca ttttgctatt gcaattaggg cacaaatgct gctttttgcc ttcaatagtc
     5101 c
//
