LOCUS       NZ_CP030738             3549 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Klebsiella pneumoniae strain B2 plasmid pKpnB2_5, complete sequence.
ACCESSION   NZ_CP030738
VERSION     NZ_CP030738.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN09519600
            Assembly: GCF_024585225.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3549)
  AUTHORS   Johnning,A., Karami,N., Tang-Hallback,E., Muller,V., Westerlund,F.,
            Adlerberth,I. and Kristiansson,E.
  TITLE     Genome dynamics of NDM-producing Klebsiella pneumoniae isolated from
            a long-term colonised patient
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3549)
  AUTHORS   Johnning,A., Karami,N., Tang-Hallback,E., Muller,V., Westerlund,F.,
            Adlerberth,I. and Kristiansson,E.
  TITLE     Direct Submission
  JOURNAL   Submitted (02-JUL-2018) Department of Mathematical Sciences,
            Chalmers University of Technology, Department of Mathematical
            Sciences, Gothenburg SE-412 96, Sweden
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 22-JAN-2018
            Assembly Method                   :: Unicycler v. 0.4.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 141x
            Sequencing Technology             :: Illumina MiSeq; Pacbio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/24/2024 16:14:49
            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)                     :: 5,794
            CDSs (total)                      :: 5,674
            Genes (coding)                    :: 5,538
            CDSs (with protein)               :: 5,538
            Genes (RNA)                       :: 120
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 136
            CDSs (without protein)            :: 136
            Pseudo Genes (ambiguous residues) :: 0 of 136
            Pseudo Genes (frameshifted)       :: 53 of 136
            Pseudo Genes (incomplete)         :: 82 of 136
            Pseudo Genes (internal stop)      :: 16 of 136
            Pseudo Genes (multiple problems)  :: 13 of 136
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP030738.1.
            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="B2"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pKpnB2_5"
                     /geo_loc_name="Sweden: Gothenburg"
                     /lat_lon="57.6823 N 11.9613 E"
                     /collection_date="2013-04-17"
                     /collected_by="Clinical Microbiology Laboratory,
                     Sahlgrenska University Hospital"
     gene            complement(116..271)
                     /locus_tag="DR189_RS28855"
                     /old_locus_tag="DR189_29820"
     CDS             complement(116..271)
                     /locus_tag="DR189_RS28855"
                     /old_locus_tag="DR189_29820"
                     /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(379..636)
                     /locus_tag="DR189_RS28860"
                     /old_locus_tag="DR189_29825"
     CDS             complement(379..636)
                     /locus_tag="DR189_RS28860"
                     /old_locus_tag="DR189_29825"
                     /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(638..>1240)
                     /locus_tag="DR189_RS28865"
                     /old_locus_tag="DR189_29830"
                     /pseudo=""
     CDS             complement(638..>1240)
                     /locus_tag="DR189_RS28865"
                     /old_locus_tag="DR189_29830"
                     /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            <1239..1580
                     /locus_tag="DR189_RS28870"
                     /old_locus_tag="DR189_29835"
                     /pseudo=""
     CDS             <1239..1580
                     /locus_tag="DR189_RS28870"
                     /old_locus_tag="DR189_29835"
                     /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(2328..2750)
                     /locus_tag="DR189_RS28875"
                     /old_locus_tag="DR189_29845"
     CDS             complement(2328..2750)
                     /locus_tag="DR189_RS28875"
                     /old_locus_tag="DR189_29845"
                     /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(2750..2941)
                     /locus_tag="DR189_RS28880"
                     /old_locus_tag="DR189_29850"
     CDS             complement(2750..2941)
                     /locus_tag="DR189_RS28880"
                     /old_locus_tag="DR189_29850"
                     /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          2990..3456
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.979"
                     /coverage="92.0"
                     /evalue="2.73e-170"
ORIGIN
        1 ttggttcaat cacctgcaag tgtttgaacc ttcggaaaaa ccgccctgca aggcggtttt
       61 ttcgtttaca gagcaagaga ttacgacgat ccaaatggga tctcaagaag atcctttacg
      121 gattgccgtt cgtaccgcta tcaagcgtga ctccggtcac cgtcgatgaa ggtgaaacag
      181 ccccacctcc ggtgtctcga acattattga cctgacatgc tgccagaacc acagaaacgg
      241 taacaacccc taggaaaagt aattttttca tatatcacct tttattttta ttattctagg
      301 caaatggata tctagtaatt attcttcaaa tccagagtta caaatgagcg ggctcataac
      361 ttgaacccgc aaattcaatc acgctttttt aaaacctggc ttaccgttag cagctcgcca
      421 ttcctttacg gttttaacaa ttcctttcgc cgaagaatct tcgcctacct taggcttgaa
      481 gatgaggttc caaccagcag gatgctctgt tagttgggcg aacgaataaa tagcatcatc
      541 gttctctttg tcagttggaa aatcagcagc gattatttta ctaacaaaag cagtaaattc
      601 ttcttccgta aaatctgaaa ttttattacc agccatttta ttttccttta tgtgtctcaa
      661 tatgattttt aggtgttagc gccttaatgt tatcgacatc cataacagcc cctccttgag
      721 atatttcttt ttcgtggtgt aattcaattt taacacgttt ccctactgat tctaaaaagt
      781 ccgcagtagg tgcccttcca gctttcatct gattaatatc agcttcacta aattgcttgc
      841 tcagtgcaga atcgtcagca accgctttcc agaacgcccg acggaaagaa tcaaaactac
      901 cgaaagtctt cccgcgtaat ttatccgcaa tctgggaagg aacaggagca ccatccccgg
      961 tactggcccc ccccatccag ttattgccaa cgttctgccc tttgccgctc actgtaccgg
     1021 gcatgttacg agggctacgg tacatcacat acagcggttt taggccggat tccggaggaa
     1081 acaccagaat aatatcgtca aaatcgaggt catccgctac cggcgtcacg gttttatctg
     1141 tagcctgtgg cgccgaaatc tgatcaccgg tatgcagaat acgctccggt agtggtaccg
     1201 gcccgcttag cgtcagtggt ccgtttgcac caggtgcgtc aagtgcacta gatttcacca
     1261 ggatggcgct taatcaggaa aaatacctcg atgactttac atggaaagaa ctgaacgacg
     1321 ttatcaactt catacgcaaa gcagaaggta gtgcatctga ccacagctat gcactccagt
     1381 tactggagat taatttcaag gcaaacccac tggatctcat ctatcaccct gactgctggt
     1441 tcaatgatga agcattgttt catgcccggc tgactaccga agaaattggt ggctacttaa
     1501 tgaaaaaatc aggtcgatgg ctcaacgatg caccggatat ccaactggtg tatgccatcc
     1561 cccaggatgt ttatgattaa ccaagtcacc atttaccata atcccttaat tgtacgcacc
     1621 gctaaaacgg cctcaggacg tttctgacgg gaaaccggta aaacaggcaa caaaccaccc
     1681 gaaaacccgc cagaaacgcg caggctctgt ttttacggca tgcatgagta tgcgcgcaag
     1741 tgcatagcgc ggaaattcac gccattcagc cagggtaagt cctgtttccg gcgttcttct
     1801 gatccgaaaa cggtgaacgg ggacgcaatt tattgcgtgg ccgtgaggcg ttgccggcgc
     1861 agccggaaaa ccggttttca gcacgttcag gaatcgggtt cgtcgacggc cggcaatcac
     1921 gttatggcaa gtcgccggac gactcaccac acgattcacc ggcgattcga atcgtgaatt
     1981 gaatcaagag tcaccatgaa caaaaaacgc ccaaattgat gaattgaatc aagagtcgat
     2041 tcatcataac aacatgataa taaagcgtga ttcacatatg aatcgtgggc aattcgtaaa
     2101 cgattcgcca tagagtcgtc cacgacttgg atctgcactt tgtaacacat cactgcacat
     2161 taatttttca ttaaccaatt gttttaaata aggaatctgc aaaattttaa ttttgcgtag
     2221 tgtgtgggta tttttagtcg tgaggagcgt tcagagatct ggcgattttt gggaaggttc
     2281 aggaactccc tgggatggcc ggagaggaaa actcaagcat ggcaggatca ggattttttc
     2341 cagaatttcc accacgggga atggggtggt gaagaaggct cgcgcttgtg ctccagaagc
     2401 tgcatagcct gacgaaggga atcaatatgc tcatctcgag ccttaacagc ccctttaaga
     2461 ccatcgtttt cagcttcaag tagagcgatt ctatgttgta aatcatgtaa accaacgctg
     2521 ttaatacttg tagattctgc gtcacttttt acatcatatt ttacagtatc gatgacacca
     2581 tcaagagaac caaaaactct aataagctct gaagtatcaa taactttaat agccttcccg
     2641 tgctttacaa cagaggtgta acttaacttc ccactgttaa tcatcttgta aattgtggga
     2701 cggctaacct taacaagccg tgccgcttca ctaatagaca ctctggccat caattgccat
     2761 cctgtaattc atccagtctc gaggacagtg tacggaaaag atgctccgca tcatcgtgga
     2821 gtttctcaca aaggtcggcc tcaacatcga gatcaagctc gttaagcttc tccagcagga
     2881 gcagagactg attctggatg aatttagcca tgttcagcgc tgttttctgt tgtttcgtca
     2941 taaagggcct cagagcgtca gtgctcaatg tcagacagat ctcttttccg cttcctcgct
     3001 cactcagtcg ctacgctcct gccgttcggc tgcggcgagc ggtcgcaacg cgcacataac
     3061 gacatagagc agacagctcg gagagggaga aggcagcaca gcggccgttt ttccataggc
     3121 tccgcccccc tgacaagcat cacagaattt gacgctcaaa tcagtggtgg cgaaacccga
     3181 caggactata aagataccag gcgtttcccc ctgatggctc cctcgtgcgc tctcctgttc
     3241 ctgccattcg gtttaccggt gtcattccgc tgttatggcc gcgtttgtct cattccacgc
     3301 ctgacactca gttccgggta ggcagttcgc tccaagctgg actgtatgca cgaacccccc
     3361 gttcagtccg actgctgcgt cttatccggt aactatcatc ttgagtccaa cccggaaaga
     3421 cacgacaaag cgccactggc agcagccact ggtaacggat ttagaggagt tggtcttgaa
     3481 gtcatgcgcc tgttaaggct aaactgaaag aacaattttt ggtgactgcg ctcctctaag
     3541 ccagttacc
//
