LOCUS       NZ_CP084797             5266 bp    DNA     circular CON 26-JAN-2024
DEFINITION  Klebsiella quasipneumoniae subsp. quasipneumoniae strain U41 plasmid
            pKqq_U41_8, complete sequence.
ACCESSION   NZ_CP084797
VERSION     NZ_CP084797.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN22024804
            Assembly: GCF_020525725.1
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 5266)
  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  JOURNAL   Unpublished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 5266)
  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
            U41
            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                   :: 01/24/2024 14:21:43
            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)                     :: 5,967
            CDSs (total)                      :: 5,840
            Genes (coding)                    :: 5,633
            CDSs (with protein)               :: 5,633
            Genes (RNA)                       :: 127
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 207
            CDSs (without protein)            :: 207
            Pseudo Genes (ambiguous residues) :: 0 of 207
            Pseudo Genes (frameshifted)       :: 73 of 207
            Pseudo Genes (incomplete)         :: 139 of 207
            Pseudo Genes (internal stop)      :: 38 of 207
            Pseudo Genes (multiple problems)  :: 37 of 207
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP084797.1.
            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..5266
                     /organism="Klebsiella quasipneumoniae subsp.
                     quasipneumoniae"
                     /mol_type="genomic DNA"
                     /strain="U41"
                     /host="Environment"
                     /sub_species="quasipneumoniae"
                     /db_xref="taxon:1667327"
                     /plasmid="pKqq_U41_8"
                     /geo_loc_name="Germany"
                     /collection_date="1990"
     gene            join(3794..5266,1..825)
                     /gene="kba"
                     /locus_tag="LGM24_RS29685"
                     /old_locus_tag="LGM24_29685"
     CDS             join(3794..5266,1..825)
                     /gene="kba"
                     /locus_tag="LGM24_RS29685"
                     /old_locus_tag="LGM24_29685"
                     /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="nuclease bacteriocin klebicin B"
                     /protein_id="WP_108451945.1"
                     /translation="MGGGFNYNGEGATGTGLDRDPYVRDSNGNAIGVKSGYHAESYGTS
                     SPALGPNGAIQITAGVIAVPGDKPRPDGGSGGGNTVNTGPAGQLLVMNKGQLGYWETRS
                     TGAGNNEHNTSVFVAVGPSEAEKTASAEKALKEKQQAEAAAKDFAAKTAAASATAEKER
                     QQAIAAATAAGQHQSVSDARNSLNNATSDVSRLKSAADSALQEAKAKRKAAIDAVPVAT
                     QAENKYQELQQKIKGLKLKNGEYGTDKWEIIGSNKEHDHWGYRFYPSGITKAQVDAAQS
                     DAVNKRNQATSLASQATAAEQDSLKATAAYNAAETRRQAAQAALNSAEQAAAAERKRQE
                     AEAAAAAAAEKKRQADAAAKAAEEARAAAEKARLMQERQAAADKLKSTDIQSVRGIPST
                     AAPAASPISWAVASLGGISLDSVTAGKAWTQIAEVMAKLRGIAGASLVGPVVATAVGLF
                     WSRDVGIGSDVVPGRDISGLMPGDALSLPDLATLIKAADSKTGVSMPVRGRIIVREGDY
                     LESQFVRTPVAGSVPVVRAALDKATGYWGYTLPAIQGVPGQTILVSPSDAPGVNGPLGL
                     AGPVPLPETIIHTGGQTTVPQGGTVTVSPAEDDIDFNDLILVFPPESGLKPLYVMYRSP
                     RNMPGTASGKGQNVGNNWMGGTSTGDGAPVPSQIADKLRGKAFGSFDSFRRAFWKAVAA
                     DPDLSKQFYPDDIERMKLGRAPTVRFRDSVGKRVKVELHHKVEISKGGDVYNVDNLNAL
                     TPKRHIEIHKGN"
                     /name="kba"
     gene            827..1084
                     /locus_tag="LGM24_RS29690"
                     /old_locus_tag="LGM24_29690"
     CDS             827..1084
                     /locus_tag="LGM24_RS29690"
                     /old_locus_tag="LGM24_29690"
                     /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            1192..1347
                     /locus_tag="LGM24_RS29695"
                     /old_locus_tag="LGM24_29695"
     CDS             1192..1347
                     /locus_tag="LGM24_RS29695"
                     /old_locus_tag="LGM24_29695"
                     /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(1555..1668)
                     /locus_tag="LGM24_RS29980"
     CDS             complement(1555..1668)
                     /locus_tag="LGM24_RS29980"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_049026061.1"
                     /translation="MHEPPVQSDCCALSGNCHLESNPERHAKAPLAAATGN"
                     /name="hypothetical protein"
     gene            2084..2275
                     /locus_tag="LGM24_RS29700"
                     /old_locus_tag="LGM24_29700"
     CDS             2084..2275
                     /locus_tag="LGM24_RS29700"
                     /old_locus_tag="LGM24_29700"
                     /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            2275..2676
                     /locus_tag="LGM24_RS29705"
                     /old_locus_tag="LGM24_29705"
     CDS             2275..2676
                     /locus_tag="LGM24_RS29705"
                     /old_locus_tag="LGM24_29705"
                     /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_108451947.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSVQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            3046..3399
                     /locus_tag="LGM24_RS29710"
                     /old_locus_tag="LGM24_29710"
     CDS             3046..3399
                     /locus_tag="LGM24_RS29710"
                     /old_locus_tag="LGM24_29710"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001415424.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_218921223.1"
                     /translation="MNRVVSRPATCHNVIAGRRRTRFLNVLKTGFPAAPATLHGHAINC
                     VPVHRFRMGRTPETGLTLAEWREFSRYALACILMHAVKTEPARFWRVFGWFVACFTGFL
                     SETPPAGFSGAYN"
                     /name="hypothetical protein"
     Typing          complement(1556..1963)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.917"
                     /coverage="99.0"
                     /evalue="2.74e-174"
ORIGIN
        1 ttgattaaag ctgctgacag taaaacgggt gtcagtatgc cggttcgagg ccggattatc
       61 gtgcgtgaag gcgattatct ggagtctcag ttcgttcgaa cacctgttgc cggtagtgtt
      121 ccggttgttc gggctgctct ggataaagct actggttact ggggatatac gttgccggcg
      181 atacagggtg tgcccggaca gacaatactg gtgagtccgt cagatgcgcc gggcgttaat
      241 ggtcctctgg gacttgctgg gccggttcct ttgcctgaaa ctattataca taccggtggg
      301 caaactacgg ttcctcaggg ggggactgtg acagtttcgc cggcagaaga cgatattgat
      361 ttcaatgatt tgattctggt atttccgccg gagtccggtc ttaaaccgtt gtatgtgatg
      421 taccgtagcc ctcgtaacat gccggggaca gccagtggta aaggtcagaa cgttggaaat
      481 aactggatgg gggggaccag taccggggat ggtgctcctg ttccttccca gattgcagat
      541 aaattacgtg ggaaggcttt cggtagtttt gattctttcc gtcgggcttt ctggaaagcg
      601 gttgctgctg atccggacct cagtaagcag ttttatcctg atgatataga gcgaatgaaa
      661 ttagggcgag ctccaacagt tcgattccga gattctgtag gtaaaagggt taaggttgaa
      721 ctacaccata aagttgaaat ttctaaaggt ggtgatgtct ataacgtaga taacctgaat
      781 gcattaacac ctaaacgtca tattgaaatt cataagggga actgaaatgg ctaataaaac
      841 tttggctgac tatacagagc aggaatttat tgagtttatc gaaaaaatta aaaaggcaga
      901 ctttgctact gagtctgagc atgatgaggc tatttatgag ttcagccagt tgactgagca
      961 tccagatggt tgggatctta tttatcatcc tcaagcagga gccgataact ctcctgctgg
     1021 tgttgtaaaa acagtaaaag agtggcgagc agctaacggt aagccaggtt ttaaaaaatc
     1081 gtgattgaat gtgcgggttc aagtgatgaa tccgcacatt tttaactctg gatttgaata
     1141 ataattacta gatatccatt tgcctagaat aataaaaata aaaggtgata tatgaaaaaa
     1201 ttacttttcc tgggggttgt taccgtttct gtggttctgg cggcatgtca ggtcaataat
     1261 gttcgtgaca ccggaggtgg ggctgtttca ccttcatcga cggtgaccgg agtcacgctt
     1321 gatagcggta cgaacggcaa tccgtaaagg atcttcttga gatcccattt ggatcgtcgt
     1381 aatctcttgc tctgtaaacg aaaaaaccgc cttggcgggc ggttttttcg aaggttcgag
     1441 gagttggcgc tctttgaacc gaggtaactg gcttagtaga ggagcgcagt aaccaaattc
     1501 gttctttcag tttagcctta actggcacat aacttcaaga ctaactcctc taaatcagtt
     1561 accagtggct gctgccagtg gcgcttttgc atgcctttcc gggttggact caagatgaca
     1621 gttaccggat aaggcgcagc agtcggactg aacggggggt tcgtgcatac agtccagctt
     1681 ggagcgaact gcctacccgg aactgagtgt caggcgtgga atgagacaaa cgcggccata
     1741 acagcggaat gacaccggta aaccgaatgg caggaacagg agagcgcacg agggagccat
     1801 cagggggaaa cgcctggtat ctttatagtc ctgtcgggtt tcgccaccac tgatttgagc
     1861 gtcaaattct gtgatgcttg tcaggggggc ggagcctatg gaaaaacggc cgctgggcgg
     1921 cctcctcttt tccgcctccc ttgctcgctc ggttttctcg agcttttata agaacggtct
     1981 tgccgctcgc cgcagccgaa cgaccggagc gtagcgactg agtgagcgag gaagcggaaa
     2041 agagactgtt cttacactga gcactgacgc tctgaggctt cttatgacga aacaacagaa
     2101 aacagcgctg aacatggcta aattcatcca gaatcagtct ctgctcctgc tggagaaact
     2161 taacgagctt gatctcgatg tcgaggccga cctttgtgag aaactccacg atgatgcgga
     2221 gcatcttttc cgtacactgt cctcgagact ggatgcatta caggatggta actgatggcc
     2281 agagtgtcta ttagtgaggc tgcccgactg acgggtaaga gtagaacgac actgcacagg
     2341 ttaattaaag caggtgacct gtccacctgt agcggtgaac gcaatgcaaa aatggtagat
     2401 acttcagagc ttttacgtgt ctttggtccc tttgaacaac cgaagggtga acaccattct
     2461 ggacaggtct ctgtacagcg tgatacagcc tctgctgacc agagtgaaca ggtgattcgt
     2521 catctgaaac aggagattga acacctgaat accttacttt tgtccaagga ttcgcacatt
     2581 gacagcctga aacaggccat gctccttctt gaaaatcacc aggcaaaatt aacggaatcc
     2641 ccggcaccat ggtggaaatt ctggaaaaaa tcctgatcct gccatgcttg agttttcctc
     2701 tccggccatc ccggggagtt cctgaacctt cccaaaaatc gccagatctc tgaacgctcc
     2761 tcacgactaa aaatacccac acactacgca aaattaaaat tttgcagatt tgtatttaat
     2821 atcagtagct tactttcctg aaatttcggt ttttaaattt tatttacatg gatccgactc
     2881 tatgacgagt cgtcatagag tccccggcga gtcgtcatag agtcggtaac gactcagggc
     2941 tataaaaaca atgagttaat aacgacccga ctctagaccc gactccccgt ttggttgttt
     3001 tttagactcg gcgactctag gtacgactct agtgaagagt cgccggtgaa tcgtgtggtg
     3061 agtcgtccgg cgacttgcca taacgtgatt gccggccgtc gacgaacccg attcctgaac
     3121 gtgctgaaaa ccggttttcc ggctgcgccg gcaacgcttc acggccacgc aataaattgc
     3181 gtccccgttc accgttttcg gatgggaaga acgccggaaa caggacttac cctggctgaa
     3241 tggcgtgaat tttcgcgcta tgcacttgcg tgcatactca tgcatgccgt aaaaacagag
     3301 cctgcgcgtt tctggcgggt tttcgggtgg tttgttgcct gttttaccgg tttcctgtca
     3361 gaaacgccgc cagccggttt tagcggtgcg tacaattaag ggattatggt aaatgggagc
     3421 gcccgggtgg cgggataccc tcaacaccaa gactttttgt acaggtctct gtccgtcagt
     3481 cacacctttt ttaagagcac atatcgttaa ttttttttct ctgccgagcc gcgtcctgtc
     3541 tgggtttttt catttctctc atgattaact taatgaaaat taaaaagata attgtatctc
     3601 tccgcgtgtt gacagagttc tcatgtcagg agtagtatcc aggtactgta tataaacaca
     3661 tgtgtttata tacagtactt tggtgtggca gagaactaat aacagcctcc ggatacaggt
     3721 tcgaaggcga taaaccgcac accagattct gacaagcagg aaaacgataa aaataacaac
     3781 aaaggagaga gttatgggtg gtggatttaa ctataacggg gaaggtgcta ctggcaccgg
     3841 attggatcgt gatccatatg ttcgcgacag caatggtaat gctattggtg ttaaatcagg
     3901 ctatcacgcg gagtcctatg ggacgtcaag tccagcctta gggcctaatg gcgctattca
     3961 gattactgct ggggttattg ctgtgcctgg agataagccc cgacctgacg gtggtagtgg
     4021 tggtgggaat actgttaaca ccggacctgc aggacagctc ctggtgatga ataaaggtca
     4081 gcttggatac tgggaaactc gttctacggg cgcgggtaac aatgagcata atacgagtgt
     4141 atttgttgct gtaggtcctt ctgaggcaga aaaaactgct tctgcagaga aggcgttaaa
     4201 ggaaaaacag caggcagaag cagcagcaaa agactttgcg gctaaaactg ctgccgcatc
     4261 agccacggcg gaaaaagaac gccagcaggc aattgctgct gcaactgcag cgggtcagca
     4321 tcagtcagtt tctgatgccc gtaatagcct gaataacgcg acgtcagatg tgtctcgtct
     4381 gaaatcagct gcagacagtg cactgcagga ggcaaaggca aaacggaagg ctgctattga
     4441 tgctgtacct gttgcaaccc aggcggaaaa taaatatcag gagctgcagc agaagattaa
     4501 aggcctgaag ctgaaaaatg gtgagtatgg tacggataaa tgggaaataa ttggctctaa
     4561 taaggagcat gatcactggg gatacaggtt ttatccatcc ggaattacca aagctcaggt
     4621 tgatgcggcg cagagcgatg ctgtgaataa gcgaaatcag gctaccagtc ttgccagtca
     4681 ggcaacagca gcagaacagg acagcctgaa agctacagct gcctataatg cggcagaaac
     4741 gcgccgtcag gctgctcagg cggcgttaaa ttctgctgaa caggctgctg ctgctgaacg
     4801 taagcggcag gaagctgagg cggctgcagc agctgctgct gagaaaaaac gtcaggcaga
     4861 cgcagcagca aaagctgcag aggaagcgcg tgcggcagcg gaaaaagcca ggctgatgca
     4921 ggagcgtcag gcagcagcag ataagctgaa atccacagat attcagtctg ttcgcgggat
     4981 cccgtctacg gctgcgcctg cagcgtcacc catttcctgg gccgttgcat cacttggtgg
     5041 tatatcgctg gatagtgtta ctgcagggaa agcctggacg cagattgctg aggtgatggc
     5101 taaactacga ggtattgccg gtgcgagtct tgttggtccc gtggtggcaa ctgctgtagg
     5161 gctgttttgg tcacgtgatg ttggtattgg cagtgatgtg gtgcccggac gtgacatcag
     5221 cgggctgatg ccgggtgatg cactgtcatt acctgatctg gccact
//
