LOCUS       NZ_CP084816             3549 bp    DNA     circular CON 10-JAN-2024
DEFINITION  Klebsiella quasipneumoniae subsp. quasipneumoniae strain SB1124
            plasmid pKqq_SB1124_10, complete sequence.
ACCESSION   NZ_CP084816
VERSION     NZ_CP084816.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN22024802
            Assembly: GCF_020525825.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella quasipneumoniae subsp. quasipneumoniae
  ORGANISM  Klebsiella quasipneumoniae subsp. quasipneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3549)
  AUTHORS   Hawkey,J., Vezina,B., Monk,J.M., Judd,L.M., Harshegyi,T., Brisse,S.,
            Holt,K.E. and Wyres,K.L.
  TITLE     A curated collection of Klebsiella metabolic models reveals variable
            substrate usage and gene essentiality
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3549)
  AUTHORS   Hawkey,J., Vezina,B., Monk,J.M., Judd,L.M., Harshegyi,T., Brisse,S.,
            Holt,K.E. and Wyres,K.L.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-OCT-2021) Infectious Diseases, Monash University, 85
            Commercial Rd, Melbourne, VIC 3004, Australia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 01-JAN-2021
            Assembly Method :: Trycycler; Medaka; Pilon v. 0.3.3; 1.3.3; 1.23
            Assembly Name :: Klebsiella quasipneumoniae subsp. quasipneumoniae
            SB1124
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 50x
            Sequencing Technology :: Minion (Oxford Nanopore) and NextSeq
            500/550 (Illumina)
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/10/2024 04:46:47
            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)                     :: 5,784
            CDSs (total)                      :: 5,657
            Genes (coding)                    :: 5,426
            CDSs (with protein)               :: 5,426
            Genes (RNA)                       :: 127
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 231
            CDSs (without protein)            :: 231
            Pseudo Genes (ambiguous residues) :: 0 of 231
            Pseudo Genes (frameshifted)       :: 82 of 231
            Pseudo Genes (incomplete)         :: 153 of 231
            Pseudo Genes (internal stop)      :: 38 of 231
            Pseudo Genes (multiple problems)  :: 36 of 231
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP084816.1.
            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 quasipneumoniae subsp.
                     quasipneumoniae"
                     /mol_type="genomic DNA"
                     /strain="SB1124"
                     /host="Water (environment)"
                     /sub_species="quasipneumoniae"
                     /db_xref="taxon:1667327"
                     /plasmid="pKqq_SB1124_10"
                     /geo_loc_name="Netherlands"
                     /collection_date="2002"
     gene            complement(300..>641)
                     /locus_tag="LGM22_RS28845"
                     /old_locus_tag="LGM22_28845"
                     /pseudo=""
     CDS             complement(300..>641)
                     /locus_tag="LGM22_RS28845"
                     /old_locus_tag="LGM22_28845"
                     /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            <640..1242
                     /locus_tag="LGM22_RS28850"
                     /old_locus_tag="LGM22_28850"
                     /pseudo=""
     CDS             <640..1242
                     /locus_tag="LGM22_RS28850"
                     /old_locus_tag="LGM22_28850"
                     /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            1244..1501
                     /locus_tag="LGM22_RS28855"
                     /old_locus_tag="LGM22_28855"
     CDS             1244..1501
                     /locus_tag="LGM22_RS28855"
                     /old_locus_tag="LGM22_28855"
                     /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            1609..1764
                     /locus_tag="LGM22_RS28860"
                     /old_locus_tag="LGM22_28860"
     CDS             1609..1764
                     /locus_tag="LGM22_RS28860"
                     /old_locus_tag="LGM22_28860"
                     /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(1922..2083)
                     /locus_tag="LGM22_RS29045"
     CDS             complement(1922..2083)
                     /locus_tag="LGM22_RS29045"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_049165871.1"
                     /translation="MHEPPVQSDCCVLSGNYHLESNPERHDKAPLAAATGNGFRGVGLE
                     VMRLLRLN"
                     /name="hypothetical protein"
     gene            2488..2679
                     /locus_tag="LGM22_RS28865"
                     /old_locus_tag="LGM22_28865"
     CDS             2488..2679
                     /locus_tag="LGM22_RS28865"
                     /old_locus_tag="LGM22_28865"
                     /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            2679..3101
                     /locus_tag="LGM22_RS28870"
                     /old_locus_tag="LGM22_28870"
     CDS             2679..3101
                     /locus_tag="LGM22_RS28870"
                     /old_locus_tag="LGM22_28870"
                     /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"
     Typing          complement(1971..2440)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.834"
                     /coverage="92.0"
                     /evalue="2.73e-170"
ORIGIN
        1 gaaaaccggt tttccggctg cgccggcaac gcctcacggc cacgcaataa attgcgtccc
       61 cgttcaccgt tttcggatca gaagaacgcc ggaaacagga cttaccctgg ctgaatggcg
      121 tgaatttccg cgctatgcac ttgcgcgcat actcatgcat gccgtaaaaa cagagcctgc
      181 gcgtttctgg cgggttttcg ggtggtttgt tgcctgtttt accggtttcc cgtcagaaac
      241 gtcctgaggc cgttttagcg gtgcgtacaa ttaagggatt atggtaaatg gtgacttggt
      301 taatcataaa catcctgggg gatggcatac accagttgga tatccggtgc atcgttgagc
      361 catcgacctg attttttcat taagtagcca ccaatttctt cggtagtcag ccgggcatga
      421 aacaatgctt catcattgaa ccagcagtca gggtgataga tgagatccag tgggtttgcc
      481 ttgaaattaa tctccagtaa ctggagtgca tagctgtggt cagatgcact accttctgct
      541 ttgcgtatga agttgataac gtcgttcagt tctttccatg taaagtcatc gaggtatttt
      601 tcctgattaa gcgccatcct ggtgaaatct agtgcacttg acgcacctgg tgcaaacgga
      661 ccactgacgc taagcgggcc ggtaccacta ccggagcgta ttctgcatac cggtgatcag
      721 atttcggcgc cacaggctac agataaaacc gtgacgccgg tagcggatga cctcgatttt
      781 gacgatatta ttctggtgtt tcctccggaa tccggcctaa aaccgctgta tgtgatgtac
      841 cgtagccctc gtaacatgcc cggtacagtg agcggcaaag ggcagaacgt tggcaataac
      901 tggatggggg gggccagtac cggggatggt gctcctgttc cttcccagat tgcggataaa
      961 ttacgcggga agactttcgg tagttttgat tctttccgtc gggcgttctg gaaagcggtt
     1021 gctgacgatt ctgcactgag caagcaattt agtgaagctg atattaatca gatgaaagct
     1081 ggaagggcac ctactgcgga ctttttagaa tcagtaggga aacgtgttaa aattgaatta
     1141 caccacgaaa aagaaatatc tcaaggaggg gctgttatgg atgtcgataa cattaaggcg
     1201 ctaacaccta aaaatcatat tgagacacat aaaggaaaat aaaatggctg gtaataaaat
     1261 ttcagatttt acggaagaag aatttactgc ttttgttagt aaaataatcg ctgctgattt
     1321 tccaactgac aaagagaacg atgatgctat ttattcgttc gcccaactaa cagagcatcc
     1381 tgctggttgg aacctcatct tcaagcctaa ggtaggcgaa gattcttcgg cgaaaggaat
     1441 tgttaaaacc gtaaaggaat ggcgagctgc taacggtaag ccaggtttta aaaaagcgtg
     1501 attgaatttg cgggttcaag ttatgagccc gctcatttgt aactctggat ttgaagaata
     1561 attactagat atccatttgc ctagaataat aaaaataaaa ggtgatatat gaaaaaatta
     1621 cttttcctag gggttgttac cgtttctgtg gttctggcag catgtcaggt caataatgtt
     1681 cgagacaccg gaggtggggc tgtttcacct tcatcgacgg tgaccggagt cacgcttgat
     1741 agcggtacga acggcaatcc gtaaaggatc ttcttgagat cccatttgga tcgtcgtaat
     1801 ctcttgctct gtaaacgaaa aaaccgcctt gcagggcggt ttttccgaag gttcaaacac
     1861 ttgcaggtga ttgaaccaag gtaactggct tagaggagcg cagtcaccaa aacttgttct
     1921 ttcagtttag ccttaacagg cgcatgactt caagaccaac tcctctaaat ccgttaccag
     1981 tggctgctgc cagtggcgct ttgtcgtgtc tttccgggtt ggactcaaga tgatagttac
     2041 cggataagac gcagcagtcg gactgaacgg ggggttcgtg catacagtcc agcttggagc
     2101 gaactgccta cccggaactg agtgtcaggc gtggaatgag acaaacgcgg ccataacagc
     2161 ggaatgacac cggtaaaccg aatggcagga acaggagagc gcacgaggga gccatcaggg
     2221 ggaaacgcct ggtatcttta tagtcctgtc gggtttcgcc accactgatt tgagcgtcaa
     2281 attctgtgat gcttgtcagg ggggcggagc ctatggaaaa acggccgctg tgctgccttc
     2341 tccctctccg agctgtctgc tctatgtcgt tatgtgcgcg ttgcgaccgc tcgccgcagc
     2401 cgaacggcag gagcgtagcg actgagtgag cgaggaagcg gaaaagagat ctgtctgaca
     2461 ttgagcactg acgctctgag gccctttatg acgaaacaac agaaaacagc gctgaacatg
     2521 gctaaattca tccagaatca gtctctgctc ctgctggaga agcttaacga gcttgatctc
     2581 gatgttgagg ccgacctttg tgagaaactc cacgatgatg cggagcatct tttccgtaca
     2641 ctgtcctcga gactggatga attacaggat ggcaattgat ggccagagtg tctattagtg
     2701 aagcggcacg gcttgttaag gttagccgtc ccacaattta caagatgatt aacagtggga
     2761 agttaagtta cacctctgtt gtaaagcacg ggaaggctat taaagttatt gatacttcag
     2821 agcttattag agtttttggt tctcttgatg gtgtcatcga tactgtaaaa tatgatgtaa
     2881 aaagtgacgc agaatctaca agtattaaca gcgttggttt acatgattta caacatagaa
     2941 tcgctctact tgaagctgaa aacgatggtc ttaaaggggc tgttaaggct cgagatgagc
     3001 atattgattc ccttcgtcag gctatgcagc ttctggagca caagcgcgag ccttcttcac
     3061 caccccattc cccgtggtgg aaattctgga aaaaatcctg atcctgccat gcttgagttt
     3121 tcctctccgg ccatcccagg gagttcctga accttcccaa aaatcgccag atctctgaac
     3181 gctcctcacg actaaaaata cccacacact acgcaaaatt aaaattttgc agattcctta
     3241 tttaaaacaa ttggttaatg aaaaattaat gtgcagtgat gtgttacaaa gtgcagatcc
     3301 aagtcgtgga cgactctatg gcgaatcgtt tacgaattgc ccacgattca tatgtgaatc
     3361 acgctttatt atcatgttgt tatgatgaat cgactcttga ttcaattcat caatttgggc
     3421 gttttttgtt catggtgact cttgattcaa ttcacgattc gaatcgccgg tgaatcgtgt
     3481 ggtgagtcgt ccggcgactt gccataacgt gattgccggc cgtcgacgaa cccgattcct
     3541 gaacgtgct
//
