LOCUS       NZ_AP024178             5783 bp    DNA     circular CON 30-NOV-2023
DEFINITION  Klebsiella pneumoniae strain KSB1_9A plasmid pKSB1_9A_5, complete
            sequence.
ACCESSION   NZ_AP024178
VERSION     NZ_AP024178.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN07211281
            Sequence Read Archive: SRR5665581, SRR5665600
            Assembly: GCF_016629585.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1
  AUTHORS   Gomi,R.
  TITLE     Klebsiella pneumoniae isolate KSB1_9A genome sequencing
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5783)
  AUTHORS   Gomi,R. and Wyres,K.L.
  TITLE     Direct Submission
  JOURNAL   Submitted (27-NOV-2020) Contact:Ryota Gomi Kyoto University;
            KyotoDaigakuKatsura, Nishikyo-ku, Kyoto 615-8540, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler
            Genome Coverage                   :: 100x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore
            Technologies MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/30/2023 02:55:01
            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)                     :: 5,782
            CDSs (total)                      :: 5,660
            Genes (coding)                    :: 5,477
            CDSs (with protein)               :: 5,477
            Genes (RNA)                       :: 122
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 183
            CDSs (without protein)            :: 183
            Pseudo Genes (ambiguous residues) :: 0 of 183
            Pseudo Genes (frameshifted)       :: 78 of 183
            Pseudo Genes (incomplete)         :: 120 of 183
            Pseudo Genes (internal stop)      :: 19 of 183
            Pseudo Genes (multiple problems)  :: 31 of 183
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP024178.1.
            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..5783
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="KSB1_9A"
                     /db_xref="taxon:573"
                     /plasmid="pKSB1_9A_5"
                     /geo_loc_name="Australia"
     gene            complement(1058..1480)
                     /locus_tag="JGR95_RS28660"
     CDS             complement(1058..1480)
                     /locus_tag="JGR95_RS28660"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005229777.1"
                     /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_064148699.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKAIKVID
                     TSELIRVFGSLDGVIDTVKYDVKSDAESTGINSVGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKHEPSSPPHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(1480..1671)
                     /locus_tag="JGR95_RS28665"
     CDS             complement(1480..1671)
                     /locus_tag="JGR95_RS28665"
                     /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_023302508.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2087..2201
                     /locus_tag="JGR95_RS28670"
                     /pseudo=""
     CDS             2087..2201
                     /locus_tag="JGR95_RS28670"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /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(2407..2562)
                     /locus_tag="JGR95_RS28675"
     CDS             complement(2407..2562)
                     /locus_tag="JGR95_RS28675"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008323621.1"
                     /GO_component="GO:0019867 - outer membrane [Evidence IEA]"
                     /GO_process="GO:0019835 - cytolysis [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="colicin release lysis protein"
                     /protein_id="WP_071561715.1"
                     /translation="MKKLLFLGVVTVSVVLAACQVNNVRDTGGGAVSPSSTVTGVTLDS
                     GTNGNP"
                     /name="colicin release lysis protein"
     gene            complement(2670..2927)
                     /locus_tag="JGR95_RS28680"
     CDS             complement(2670..2927)
                     /locus_tag="JGR95_RS28680"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015366249.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="bacteriocin immunity protein"
                     /protein_id="WP_010904244.1"
                     /translation="MANKTLADYTEQEFIEFIEKIKKADFATESEHDEAIYEFSQLTEH
                     PDGWDLIYHPQAGADNSPAGVVKTVKEWRAANGKPGFKKS"
                     /name="bacteriocin immunity protein"
     gene            complement(3109..3372)
                     /locus_tag="JGR95_RS28685"
     CDS             complement(3109..3372)
                     /locus_tag="JGR95_RS28685"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015377593.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_064148700.1"
                     /translation="MSNPIEDIIKNESVSDVLRYFGPGRDISKIDRMYVSYKFEVISEG
                     VLLSEYKKLFDNGELKYDSNKNVIKGPNWKEPAFVTQKKYGI"
                     /name="hypothetical protein"
     gene            complement(3383..5725)
                     /locus_tag="JGR95_RS28690"
     CDS             complement(3383..5725)
                     /locus_tag="JGR95_RS28690"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010904246.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="S-type pyocin domain-containing protein"
                     /protein_id="WP_181486822.1"
                     /translation="MGGGFNYNGEGATGTGLDRDPYVRDSNGNAIGVKSGYHAESYGTS
                     SPALGPNGAIQITAGVIAVPGDKPRPDGGSGGGNTVNTGPAGQLLVMNKGQLGYWETRS
                     TGAGNNEHNTSVFVAVGPSEAEKTASAEKALKEKQQAEAAAKDFAAKTAAASATAEKER
                     QQAIAAATAAGQHQSVSDARNSLNNATSDVSRLKSAADSALQEAKAKRKAAIDAVPVAT
                     QAENKYQELQQKIKGLKLKNGEYGTEKWEIIGSNKEHDHWGYRFYPSGITKAQVDVAQS
                     DAVNKRNQATSLASQATAAEQDSLKATAAYNAAETRRQAAQAALNSAEQAAAAERKRQE
                     AEAAAAAAAEKKRQADAVAKAAEEARAAAEKARLMQERQAAADKLKSTDIQSVRGIPST
                     ASPAASPISWAVASLGGISLDSVTAGKAWTQIAEVMAKLRGIAGASLVGPVVATAVGLF
                     WSRDVGIGSDVVPGRDISGLMPGDALSLPDLATLIKAADSKTGVSMPVRGRIIVREGDY
                     LESQFVRTPVAGSVPVVRATLDKATGYWGYTLPAIQGVPGQTILVSPSDAPGVNAPLGL
                     AGPVPLPETIIHTGGQTTVPQGGTVTVSPVIGEVDFRDLILVFPPESGLKPLYVMPVSP
                     YGDATEKGEHSGRPYNPDKAGGPVQNLNWRSAVINKAGIDKVKLHTGRFGESAANKVMI
                     DRLEKILSGQLQVTDTDKRFYTHELRELERYRALGVPDNVKPDDKGVTWNNTHTATLED
                     YKINEKTDPLYTKDAEEAEYKAELKNK"
                     /name="S-type pyocin domain-containing protein"
     Typing          1793..2201
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.341"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gtttatcgcc ttcgaacctg tatccggagg ctgttattag ttctctgcca caccaagtac
       61 tgtatataaa tacatgtgtt tatatacagt acttgaatac tactcctgac atgagaactc
      121 tgtcaacacg cggagagata caattatctt ttgaattttc attaagttaa gcgtaataga
      181 aatgacaaaa cccagacagg acgcggctcg gcagagaaaa aaaattaacg atatgtgctc
      241 ttaaaaaggg tgtgactgac ggacagagac ctgtacaaaa agtcttggtg tagagggtat
      301 tccgccaccc gagcgccccc atttaccata atcccttaat tgtacgcacc gctaaaacgg
      361 cctcagggcg tttctgacgg gaaaccggta aaacaggcaa caaaccaccc gaaaacccgc
      421 cagaaacgcg caggctctgt ttttacggca tgcatgagta tgcgcgcaag tgcatagcgc
      481 ggaaattcac gccattcagc cagggtaagt cctgtttccg gcgttcttct gatccgaaaa
      541 cggtgaacgg ggacgcaatt tattgcgtgg ccgtgaggcg ttgccggcgc agccggaaaa
      601 ccggttttca gcacgttcag gaatcgggtt cgtcgacggc cggcaatcac gttatggcaa
      661 gtcgccggac gactcaccac acgattcacc ggcgattcga atcgtgaatt gaatcaagag
      721 tcaccatgaa caaaaaacgc ccaaattgat gaattgaatc aagagtcgat tcatcataac
      781 aacatgataa taaagcgtga ttcacatatg aatcgtgggc aattcgtaaa cgattcgcca
      841 tagagtcgtc cacgacttgg atctgcactt tgtaacacat cactgcacat taatttttca
      901 ttaaccaatt gttttaaata aagaatctgc aaaattttaa ttttgcgtag tgtgtgggta
      961 tttttagtgg tgaggagcgt tcagagatct ggcgattttt tggaaggttc aggaactccc
     1021 cggaatggcc ggagaggaaa actgaagcat gatggggtca ggattttttc cagaatttcc
     1081 accacgggga atggggtggt gaagaaggtt cgtgcttgtg ctccagaagc tgcatagcct
     1141 gacgaaggga atcaatatgc tcatctcgag ccttaacagc ccctttaaga ccatcgtttt
     1201 cagcttcaag taaagcgatt ctatgttgta aatcatgtaa accaacgctg ttaatacctg
     1261 tagattctgc gtcacttttt acatcatatt ttacagtatc gattacacca tcaagagaac
     1321 caaacactct aataagctca gaagtatcaa taactttaat agccttcccg tgctttacaa
     1381 cagaggtgta acttaacttc ccactgttaa tcatcttgta aattgtagga cgactaacct
     1441 taacaagccg tgccgcttca ctaatagaca ctctggccat cagttaccat cctgtaattc
     1501 atccagtctc gaggacagtg tacggaaaag atgctccgca tcatcgtgga gtttctcaca
     1561 aaggtcggcc tcgacatcga gatcaagctc gttaagcttc tccagcagga gcagagactg
     1621 attctggatg aatttagcca tgttcagcgc tgttttctgt tgtttcgtca taagaggcct
     1681 cagagcgtca gtgctcaatg tagggatgtt ctcttttccg cttcctcgct cactcagtcg
     1741 ctacgctcct gccgttcggc tgcggcgagc ggcaggagca tgcgtataaa agctcgagaa
     1801 aaccgagcga tcgcgtgatg gggagaagga gaggccgcac agcggccgtt tttccatagg
     1861 ctccgccccc ctgacaagca tcacagaatt tgacgctcaa atcagtggtg gcgaaacccg
     1921 acaggactat aaagatacca ggcgtttccc cctgatggct ccctcgtgcg ctctcctgtt
     1981 cctgccattc ggtttaccgg tgtcattccg ctgttatggc cgcgtttatc tcattccacg
     2041 cctgacactc agttccgggt aggcagttcg ctccaagctg gactgtatgc acgaaccccc
     2101 cgttcagtcc gactgctgcg ccttgatccg gtaactatca tcttgagtcc aacccggtaa
     2161 gacatgcaaa agcaccactg gcagcagcca ctggtaactg atttagagga gttagtcttg
     2221 aagttatgcg ccggttaagg ctaaactgaa agaacaagtt ttggttactg tgctcctcat
     2281 aagccagtta cctcggttca aagagcgcca actcttggaa ccttcgaaaa accgcccgcc
     2341 aaggcggttt tttcgtttac agagcaagag attacgacga tccaaatggg atctcaagaa
     2401 gatcctttac ggattgccgt tcgtaccgct atcaagcgtg actccggtca ccgtcgatga
     2461 aggtgaaaca gccccacctc cggtgtcacg aacattattg acctgacatg ccgccagaac
     2521 cacagaaacg gtaacaaccc ccaggaaaag taattttttc atatatcacc ttttattttt
     2581 attattctaa gcaaatggat acctagtaat tattattcaa atccagagtt aaaaatgtgc
     2641 ggattcatca cttgaacccg cacattcaat cacgattttt taaaacctgg cttaccgtta
     2701 gctgctcgcc actcttttac tgtttttaca acaccagcag gagagttatc ggctcctgct
     2761 tgaggatgat aaataagatc ccaaccatct ggatgttcag tcaactggct gaactcataa
     2821 atggcctcat catgctcaga ctcagtagca aagtctgctt ttttaatttt ttcgataaac
     2881 tcaataaatt cctgctctgt atagtcagcc aaagttttat tagccatttc agttcccatt
     2941 atggatttca atatggcgtt taggttttaa tgcactcagc ttaccccaga tattgttgac
     3001 ctgacatgct gccagtatca tcgaaaccac gaccactcaa aaaagaaacc cttttcatat
     3061 gtgagcttta atcaaagccc tcttttcaaa gggcttcata tgcacacttt aaatgccgta
     3121 ttttttttgt gttacaaaag caggctcttt ccagttaggc cccttaataa catttttatt
     3181 agagtcatac tttagttctc cattgtcgaa taactttttg tattcagata aaagaacgcc
     3241 ttcagagatc acttcaaact tatatgaaac atacatacgg tcaatttttg aaatgtcgcg
     3301 accaggacca aagtagcgaa gcacatcact taccgattca tttttaatga tgtcttcaat
     3361 cggattactc attctctccc cctcatttat tttttagctc tgctttatac tctgcctctt
     3421 cagcatcctt tgtatagagc ggatcagttt tttcattaat tttataatct tccagcgttg
     3481 ctgtatgagt gttattccac gtaacacctt tatcatctgg cttcacatta tcagggaccc
     3541 ctaaagcacg ataacgttcc agctctctga gttcatgggt gtaaaaccgc ttgtccgtat
     3601 cagttacctg taactgaccg ctcaggattt tctccagacg gtcgatcatt actttgtttg
     3661 ctgctgattc accaaagcga ccggtatgta gcttcacctt atcaatcccg gccttgttga
     3721 tgactgcact acgccagtta agattctgta caggaccacc tgccttatcc ggattataag
     3781 gtcttccgct gtgctcgcct ttttctgttg catctccata agggctaact ggcatcacat
     3841 ataacggctt taaccctgac tcaggaggga aaacaaggat aagatctcga aaatcaactt
     3901 caccaataac aggagatact gtcacagtcc ccccctgagg gaccgtagtt tgcccaccgg
     3961 tatgtataat agtttcaggc aaaggaaccg gcccagcaag tcccagagga gcattaacgc
     4021 ccggcgcatc tgacggactt accagtattg tctgtccggg cacgccctgt atcgccggca
     4081 acgtatatcc ccagtaacca gtagctttat ccagagtagc ccgaacaacc ggaacactac
     4141 cggcaacagg tgttcgaacg aactgagact ccagataatc gccttcacgc acgataatcc
     4201 ggcctcgaac cggcatactg acacccgttt tactgtcagc agctttaatc aaagtggcca
     4261 gatcaggtaa tgacagtgca tcacccggca tcagcccgct gatgtcacgt ccgggcacca
     4321 catcactgcc aataccaaca tcacgtgacc aaaacagccc tacagcagtt gccaccacgg
     4381 gaccaacaag actcgcaccg gcaatacctc gcagtttagc catcacctca gcaatctgcg
     4441 tccaggcttt ccctgcagta acactatcca gcgatatacc accaagtgat gcaacggccc
     4501 aggaaatggg tgacgctgca ggcgatgccg tagacgggat cccgcgaaca gactgaatat
     4561 ctgtggattt cagcttatct gctgctgcct gacgctcctg catcagcctg gctttttccg
     4621 ctgccgcacg cgcttcctct gctgcttttg ctactgcgtc tgcctgacgt tttttctcag
     4681 cagcagctgc tgcagccgcc tcagcttcct gccgcttacg ttcagcagca gcagcctgtt
     4741 cagcagaatt taacgccgcc tgagcagcct gacggcgcgt ttctgccgca ttataggcag
     4801 ctgtagcttt caggctgtcc tgttctgctg ctgttgcctg actggcaaga ctggtagcct
     4861 gatttcgctt attcacagca tcgctctgcg ccacatcaac ctgagctttg gtaattccgg
     4921 atggataaaa cctgtatccc cagtgatcat gctccttatt agagccaatt atttcccatt
     4981 tttccgtacc atactcacca tttttcagct tcaggccttt aatcttctgc tgcagctcct
     5041 gatatttatt ttccgcctgg gttgcaacag gtacagcatc aatagcagcc ttccgttttg
     5101 cctttgcctc ctgcagtgca ctgtctgcag ctgatttcag acgagacaca tctgacgtcg
     5161 cgttattcag gctattacgg gcatcagaaa ctgactgatg ctgacccgct gcagttgcag
     5221 cagcaattgc ctgctggcgt tctttttccg ccgtggctga tgcggcagca gttttagccg
     5281 caaagtcttt tgctgctgct tctgcctgct gtttttcctt taacgccttc tctgcagaag
     5341 cagttttttc tgcctcagaa ggacctacgg caacaaatac actcgtatta tgctcattgt
     5401 tacccgcgcc cgtagaacga gtttcccagt atccaagctg acctttattc atcaccagga
     5461 gctgtcctgc cggtccggtg ttaacagtat tcccaccacc actaccaccg tcaggtcggg
     5521 gcttatctcc aggcacagca ataaccccag cagtaatctg aatagcgcca ttaggcccta
     5581 aggctggact tgaggtccca taggactccg cgtgatagcc tgatttaaca ccaatagcat
     5641 taccattgct gtcgcgaaca tatggatcac gatccaatcc ggtgccagta gcaccttccc
     5701 cgttatagtt aaatccacca cccataactc tctcctttgt tgttattttt atcgttttcc
     5761 tgcttgtcag aatctggtgt gcg
//
