LOCUS       NZ_CP031821             3549 bp    DNA     circular CON 18-JUN-2023
DEFINITION  Klebsiella pneumoniae strain INF235 isolate INF235 plasmid unnamed4,
            complete sequence.
ACCESSION   NZ_CP031821
VERSION     NZ_CP031821.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMEA3357198
            Assembly: GCF_003590665.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3549)
  AUTHORS   Wyres,K.L., Wick,R., Judd,L.M., Froumine,R., Tokolyi,A., Gorrie,C.,
            Lam,M.C., Duchene,S., Jenney,A. and Holt,K.E.
  TITLE     Distinct evolutionary dynamics of horizontal gene transfer in drug
            resistant and virulent clones of Klebsiella pneumoniae
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3549)
  AUTHORS   Wyres,K.L., Wick,R., Judd,L.M., Froumine,R., Tokolyi,A., Gorrie,C.,
            Lam,M.C., Duchene,S., Jenney,A. and Holt,K.E.
  TITLE     Direct Submission
  JOURNAL   Submitted (21-AUG-2018) Department of Biochemistry and Molecular
            Biology; Bio21 Molecular Science and Biotechnology Institute,
            University of Melbourne, University of Melbourne, Parkville, VIC
            3010, Australia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.2.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 119x
            Sequencing Technology :: Nanopore minION; Illumina HiSeq 2000
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 06/18/2023 11:32:07
            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)                     :: 5,453
            CDSs (total)                      :: 5,329
            Genes (coding)                    :: 5,136
            CDSs (with protein)               :: 5,136
            Genes (RNA)                       :: 124
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 193
            CDSs (without protein)            :: 193
            Pseudo Genes (ambiguous residues) :: 0 of 193
            Pseudo Genes (frameshifted)       :: 77 of 193
            Pseudo Genes (incomplete)         :: 119 of 193
            Pseudo Genes (internal stop)      :: 48 of 193
            Pseudo Genes (multiple problems)  :: 41 of 193
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP031821.1.
            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..3549
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="INF235"
                     /isolate="INF235"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="unnamed4"
                     /geo_loc_name="Australia"
                     /collection_date="2013-11"
     gene            complement(join(3468..3549,1..74))
                     /locus_tag="D0898_RS27985"
                     /old_locus_tag="D0898_28050"
     CDS             complement(join(3468..3549,1..74))
                     /locus_tag="D0898_RS27985"
                     /old_locus_tag="D0898_28050"
                     /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(182..439)
                     /locus_tag="D0898_RS27990"
                     /old_locus_tag="D0898_28055"
     CDS             complement(182..439)
                     /locus_tag="D0898_RS27990"
                     /old_locus_tag="D0898_28055"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_013365855.1"
                     /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_025714833.1"
                     /translation="MAGNKISDFTEEEFTAFVSKIIAADFPTDKENDDAIYSFAQLTEH
                     PAGWNLIFKPKVGEDSSAKGIVKTVKEWRAANGKPGFKKA"
                     /name="bacteriocin immunity protein"
     gene            complement(441..>1043)
                     /locus_tag="D0898_RS27995"
                     /old_locus_tag="D0898_28060"
                     /pseudo=""
     CDS             complement(441..>1043)
                     /locus_tag="D0898_RS27995"
                     /old_locus_tag="D0898_28060"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004178051.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="klebicin B-related nuclease bacteriocin"
                     /name="klebicin B-related nuclease bacteriocin"
     gene            <1042..1383
                     /locus_tag="D0898_RS28000"
                     /old_locus_tag="D0898_28065"
                     /pseudo=""
     CDS             <1042..1383
                     /locus_tag="D0898_RS28000"
                     /old_locus_tag="D0898_28065"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004178052.1"
                     /note="incomplete; partial in the middle of a contig;
                     missing N-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     gene            complement(2131..2553)
                     /locus_tag="D0898_RS28010"
                     /old_locus_tag="D0898_28075"
     CDS             complement(2131..2553)
                     /locus_tag="D0898_RS28010"
                     /old_locus_tag="D0898_28075"
                     /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_025714834.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKAIKVID
                     TSELIRVFGSLDGVIDTVKYDVKSDAESTSINSVGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKREPSSPPHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(2553..2744)
                     /locus_tag="D0898_RS28015"
                     /old_locus_tag="D0898_28080"
     CDS             complement(2553..2744)
                     /locus_tag="D0898_RS28015"
                     /old_locus_tag="D0898_28080"
                     /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"
     Typing          2793..3259
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.979"
                     /coverage="92.0"
                     /evalue="2.73e-170"
ORIGIN
        1 cgaacattat tgacctgaca tgctgccaga accacagaaa cggtaacaac ccctaggaaa
       61 agtaattttt tcatatatca ccttttattt ttattattct aggcaaatgg atatctagta
      121 attattcttc aaatccagag ttacaaatga gcgggctcat aacttgaacc cgcaaattca
      181 atcacgcttt tttaaaacct ggcttaccgt tagcagctcg ccattccttt acggttttaa
      241 caattccttt cgccgaagaa tcttcgccta ccttaggctt gaagatgagg ttccaaccag
      301 caggatgctc tgttagttgg gcgaacgaat aaatagcatc atcgttctct ttgtcagttg
      361 gaaaatcagc agcgattatt ttactaacaa aagcagtaaa ttcttcttcc gtaaaatctg
      421 aaattttatt accagccatt ttattttcct ttatgtgtct caatatgatt tttaggtgtt
      481 agcgccttaa tgttatcgac atccataaca gcccctcctt gagatatttc tttttcgtgg
      541 tgtaattcaa ttttaacacg tttccctact gattctaaaa agtccgcagt aggtgccctt
      601 ccagctttca tctgattaat atcagcttca ctaaattgct tgctcagtgc agaatcgtca
      661 gcaaccgctt tccagaacgc ccgacggaaa gaatcaaaac taccgaaagt cttcccgcgt
      721 aatttatccg caatctggga aggaacagga gcaccatccc cggtactggc cccccccatc
      781 cagttattgc caacgttctg ccctttgccg ctcactgtac cgggcatgtt acgagggcta
      841 cggtacatca catacagcgg ttttaggccg gattccggag gaaacaccag aataatatcg
      901 tcaaaatcga ggtcatccgc taccggcgtc acggttttat ctgtagcctg tggcgccgaa
      961 atctgatcac cggtatgcag aatacgctcc ggtagtggta ccggcccgct tagcgtcagt
     1021 ggtccgtttg caccaggtgc gtcaagtgca ctagatttca ccaggatggc gcttaatcag
     1081 gaaaaatacc tcgatgactt tacatggaaa gaactgaacg acgttatcaa cttcatacgc
     1141 aaagcagaag gtagtgcatc tgaccacagc tatgcactcc agttactgga gattaatttc
     1201 aaggcaaacc cactggatct catctatcac cctgactgct ggttcaatga tgaagcattg
     1261 tttcatgccc ggctgactac cgaagaaatt ggtggctact taatgaaaaa atcaggtcga
     1321 tggctcaacg atgcaccgga tatccaactg gtgtatgcca tcccccagga tgtttatgat
     1381 taaccaagtc accatttacc ataatccctt aattgtacgc accgctaaaa cggcctcagg
     1441 acgtttctga cgggaaaccg gtaaaacagg caacaaacca cccgaaaacc cgccagaaac
     1501 gcgcaggctc tgtttttacg gcatgcatga gtatgcgcgc aagtgcatag cgcggaaatt
     1561 cacgccattc agccagggta agtcctgttt ccggcgttct tctgatccga aaacggtgaa
     1621 cggggacgca atttattgcg tggccgtgag gcgttgccgg cgcagccgga aaaccggttt
     1681 tcagcacgtt caggaatcgg gttcgtcgac ggccggcaat cacgttatgg caagtcgccg
     1741 gacgactcac cacacgattc accggcgatt cgaatcgtga attgaatcaa gagtcaccat
     1801 gaacaaaaaa cgcccaaatt gatgaattga atcaagagtc gattcatcat aacaacatga
     1861 taataaagcg tgattcacat atgaatcgtg ggcaattcgt aaacgattcg ccatagagtc
     1921 gtccacgact tggatctgca ctttgtaaca catcactgca cattaatttt tcattaacca
     1981 attgttttaa ataaggaatc tgcaaaattt taattttgcg tagtgtgtgg gtatttttag
     2041 tcgtgaggag cgttcagaga tctggcgatt tttgggaagg ttcaggaact ccctgggatg
     2101 gccggagagg aaaactcaag catggcagga tcaggatttt ttccagaatt tccaccacgg
     2161 ggaatggggt ggtgaagaag gctcgcgctt gtgctccaga agctgcatag cctgacgaag
     2221 ggaatcaata tgctcatctc gagccttaac agccccttta agaccatcgt tttcagcttc
     2281 aagtagagcg attctatgtt gtaaatcatg taaaccaacg ctgttaatac ttgtagattc
     2341 tgcgtcactt tttacatcat attttacagt atcgatgaca ccatcaagag aaccaaaaac
     2401 tctaataagc tctgaagtat caataacttt aatagccttc ccgtgcttta caacagaggt
     2461 gtaacttaac ttcccactgt taatcatctt gtaaattgtg ggacggctaa ccttaacaag
     2521 ccgtgccgct tcactaatag acactctggc catcaattgc catcctgtaa ttcatccagt
     2581 ctcgaggaca gtgtacggaa aagatgctcc gcatcatcgt ggagtttctc acaaaggtcg
     2641 gcctcaacat cgagatcaag ctcgttaagc ttctccagca ggagcagaga ctgattctgg
     2701 atgaatttag ccatgttcag cgctgttttc tgttgtttcg tcataaaggg cctcagagcg
     2761 tcagtgctca atgtcagaca gatctctttt ccgcttcctc gctcactcag tcgctacgct
     2821 cctgccgttc ggctgcggcg agcggtcgca acgcgcacat aacgacatag agcagacagc
     2881 tcggagaggg agaaggcagc acagcggccg tttttccata ggctccgccc ccctgacaag
     2941 catcacagaa tttgacgctc aaatcagtgg tggcgaaacc cgacaggact ataaagatac
     3001 caggcgtttc cccctgatgg ctccctcgtg cgctctcctg ttcctgccat tcggtttacc
     3061 ggtgtcattc cgctgttatg gccgcgtttg tctcattcca cgcctgacac tcagttccgg
     3121 gtaggcagtt cgctccaagc tggactgtat gcacgaaccc cccgttcagt ccgactgctg
     3181 cgtcttatcc ggtaactatc atcttgagtc caacccggaa agacacgaca aagcgccact
     3241 ggcagcagcc actggtaacg gatttagagg agttggtctt gaagtcatgc gcctgttaag
     3301 gctaaactga aagaacaagt tttggtgact gcgctcctct aagccagtta ccttggttca
     3361 atcacctgca agtgtttgaa ccttcggaaa aaccgccctg caaggcggtt ttttcgttta
     3421 cagagcaaga gattacgacg atccaaatgg gatctcaaga agatccttta cggattgccg
     3481 ttcgtaccgc tatcaagcgt gactccggtc accgtcgatg aaggtgaaac agccccacct
     3541 ccggtgtct
//
