LOCUS       NZ_CP084814             4937 bp    DNA     circular CON 10-JAN-2024
DEFINITION  Klebsiella quasipneumoniae subsp. quasipneumoniae strain SB1124
            plasmid pKqq_SB1124_8, complete sequence.
ACCESSION   NZ_CP084814
VERSION     NZ_CP084814.1
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 4937)
  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  JOURNAL   Unpublished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 4937)
  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
            CP084814.1.
            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..4937
                     /organism="Klebsiella quasipneumoniae subsp.
                     quasipneumoniae"
                     /mol_type="genomic DNA"
                     /strain="SB1124"
                     /host="Water (environment)"
                     /sub_species="quasipneumoniae"
                     /db_xref="taxon:1667327"
                     /plasmid="pKqq_SB1124_8"
                     /geo_loc_name="Netherlands"
                     /collection_date="2002"
     gene            join(4862..4937,1..86)
                     /locus_tag="LGM22_RS28770"
                     /old_locus_tag="LGM22_28770"
     CDS             join(4862..4937,1..86)
                     /locus_tag="LGM22_RS28770"
                     /old_locus_tag="LGM22_28770"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_162870772.1"
                     /translation="MAKHWSGQECPKTGTYGQYHDTDNSYAGSEYDRHVSKGDKFPPSK
                     NNHHFQEK"
                     /name="hypothetical protein"
     gene            complement(887..1288)
                     /locus_tag="LGM22_RS28775"
                     /old_locus_tag="LGM22_28775"
     CDS             complement(887..1288)
                     /locus_tag="LGM22_RS28775"
                     /old_locus_tag="LGM22_28775"
                     /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_064181835.1"
                     /translation="MTRVSISEAARLTGKSRTTLHRLIKTGELSTCSGERNAKMVDISE
                     LLRVFGPFDQPKSEHLTRQVPEQCDTAPADQSEHIIRQLKQQIEHLNILILSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            1614..2228
                     /locus_tag="LGM22_RS28780"
                     /old_locus_tag="LGM22_28780"
     CDS             1614..2228
                     /locus_tag="LGM22_RS28780"
                     /old_locus_tag="LGM22_28780"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019725132.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="TIR domain-containing protein"
                     /protein_id="WP_064181836.1"
                     /translation="MGKHKVFISYHHANDQYYKNALEKMNEQHEIFVNRSVSLGDIDED
                     EAPQKIREIIRDKYLRDTSVLILLVGTETKNRKHVDWELYSSMRDSTINKKSGILVVNL
                     PSTNTTYIRSTHGTNEKSEVHPTVTEWISIDKRSTYEERFPYMPARIIDNFMKSGSYIS
                     VVNWNQIENNPETLRKLIDMTYNDREKATYDMSREMRMHNS"
                     /name="TIR domain-containing protein"
     gene            complement(2265..2972)
                     /locus_tag="LGM22_RS28785"
                     /old_locus_tag="LGM22_28785"
     CDS             complement(2265..2972)
                     /locus_tag="LGM22_RS28785"
                     /old_locus_tag="LGM22_28785"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001258875.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_064181837.1"
                     /translation="MKTFVTLWTIAFLSFIAVMCTVDISNYIPSVYTVFSKNRPLVTGA
                     LSILLISVFIWLMVSLYLLKKYSVKVEKLSLGGVNILFNESATLYKKSVKNHLDSKRAI
                     FKLRKNVDAFDEVISSYYQTYQFIRDEMKILNPKKDREIYDFSNEMLMVLNRFLTNYQN
                     NYKRWYKYISDKDEVVDRVSGDVMRFHATSINKIQMQYYDYERILKGFKDVNRFFVNDV
                     KPKFGINTDKWNW"
                     /name="hypothetical protein"
     gene            complement(2974..3876)
                     /locus_tag="LGM22_RS28790"
                     /old_locus_tag="LGM22_28790"
     CDS             complement(2974..3876)
                     /locus_tag="LGM22_RS28790"
                     /old_locus_tag="LGM22_28790"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004088970.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_064181838.1"
                     /translation="MHNAALELFNERLPHKPYFSDDLHFGVRIAGKERAILAKYIQFNQ
                     PHAMFWLGFDVDRAGSAIDWSDRNAPAPTLTITNPENGHAHLLYALENSIRTAPDGKIK
                     PLRYAASVENALRKKLEADAGYSGLICKNPNHNHWKIAVWQPKLYTLDWLADFLDLNTG
                     NDKEIVADYGLGRNCTLFDKTRKWAYRAIRQGWPEYEQWLQACYERACAYNLQFARPLD
                     ENEVRGIAKSIAKWTSNKFSPEEFSKFVDITHSSEIQSKRGKKSGQSRRKGSLEEIKPW
                     VAMGISRRKYFYIKKKKVE"
                     /name="replication initiation protein"
     gene            complement(4124..4399)
                     /locus_tag="LGM22_RS28795"
                     /old_locus_tag="LGM22_28795"
     CDS             complement(4124..4399)
                     /locus_tag="LGM22_RS28795"
                     /old_locus_tag="LGM22_28795"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017412855.1"
                     /GO_process="GO:0008219 - cell death [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Txe/YoeB family addiction module toxin"
                     /protein_id="WP_019725129.1"
                     /translation="MSKWNIKFTRNGADDLNYWRDTDKKKFERIRQLLLSIEADPLTGI
                     GKPERLRHHKDPALYSRRIDQSHRLVYSIQNGEIIIYAARYHYGDK"
                     /name="Txe/YoeB family addiction module toxin"
     gene            complement(4380..4625)
                     /locus_tag="LGM22_RS28800"
                     /old_locus_tag="LGM22_28800"
     CDS             complement(4380..4625)
                     /locus_tag="LGM22_RS28800"
                     /old_locus_tag="LGM22_28800"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012848468.1"
                     /GO_component="GO:0110001 - toxin-antitoxin complex
                     [Evidence IEA]"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0097351 - toxin sequestering activity [Evidence IEA]"
                     /GO_process="GO:0045927 - positive regulation of growth
                     [Evidence IEA]; GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system Phd/YefM family
                     antitoxin"
                     /protein_id="WP_025987695.1"
                     /translation="MHAINFTDARKHFAETMKRVTDDAEPVRVMRRDAPDIVMIDAGEY
                     EALIETVYLFSNPANAEHINESMKQAERGEFVEVEY"
                     /name="type II toxin-antitoxin system Phd/YefM family
                     antitoxin"
ORIGIN
        1 acgctggttc tgaatatgat cgccatgtga gcaagggtga taagttccct ccgagcaaaa
       61 acaaccacca cttccaagaa aaataaaata tcttcagaag tctaaactaa aagccctctg
      121 gggctttttt tgtacctgcc attcacttga tttaccataa catccgttat cagcaccgcc
      181 tgagaggccc tcagggcgtt tctgacggga aaccggtaaa acaggcaaca aaccacccga
      241 aaacccgcca gaaacgcgca ggctctgttt ttacggcatg catgagtatg cgcgcaagtg
      301 catagcgcgg aaattgacac cattcagcca ggggaagtcc tgtttccggc gttcttctcc
      361 tccgaaaacg gtgaacgggg acgcaattta ttgcgtgtcc gtgaagcgtt gccggcgcag
      421 ccggaaaacc ggttttcagc acgttcagga atcgggttcg ccgatagccg gtaatgacgt
      481 gatggcaagt cgccggacga ctcaccacac gattcaccgg cgactcttca ctagagtcgt
      541 acccagagtc gcctcgtcta aaaaacaacc aaacggggag tcgtgtctag agtcgggtcg
      601 ttattaactt attgttttta tagtcctgag tcgttaccga ctctatgacg actcgccggg
      661 gactctatga cgagtcatca tagagtcgga tctatataaa taaaatttaa aaaacgaaat
      721 ttcaggaaag taaaccattg atattaaata caaatctgca aaattttaat tttgcgtagt
      781 gtgtgggtat ttttagtggt gaggagcgtt cagagatgtg acgatttttg ggaaggttca
      841 ggaactcccc gggatggccg gagaggaaaa ctgaagcatg acggggtcag gatttcttcc
      901 agaatttcca ccacggcgcc ggggattcag ttaattttgc ctggtgattt tcaagaagga
      961 gcatggcctg tttcaagcta tcaatgtgcg aatccttaga taaaatcaat atgttaaggt
     1021 gttcaatctg ctgtttcagt tgacgaatga tatgttcact ctggtcagca ggcgctgtat
     1081 cacactgttc aggtacttgt cgagtaaggt gttcactctt cggttggtca aacggtccga
     1141 aaacacgcaa aagctcggaa atatcgacca tttttgcatt tcgttcaccg ctacaagtgg
     1201 acagttcacc tgttttgatt aacctgtgca gcgttgtccg gctcttaccc gtcagccgtg
     1261 cagcctcact aatagacact ctggtcatca gttatcatcc tttaatgcat tcagtctcaa
     1321 ggaaacaggg gccagcagct tacgacatat cggcccagaa gtgatgtgtt tttcggaaag
     1381 gcgatgaaac acaggagtga ccgtggaaaa tgcaggcaac agatgacttt ccgcttcctc
     1441 gcgcattcgc tcactacgtt cggtcatgag actgcggcga gcggtacgta cgaacgaagt
     1501 gaggttatag ctatcttctc aaggcgttta ggggagctct aaaagagagc tgttatctga
     1561 tataggttca agtgcaaaat agagtgcaca caaacaaaaa aaggacaata aaaatgggaa
     1621 agcataaggt attcattagc taccaccatg cgaatgatca gtactacaaa aacgcacttg
     1681 aaaaaatgaa tgagcaacat gaaatattcg tgaatcgctc agtatcttta ggtgatatag
     1741 atgaagatga agccccacaa aaaataagag agataataag agataaatat cttagagata
     1801 catcagttct tatccttctt gttggaactg aaacaaaaaa cagaaaacac gtagattggg
     1861 aactttactc tagcatgaga gatagtacca ttaacaaaaa atcaggaatt ttagtcgtca
     1921 atctcccgtc aacaaatact acgtacattc gttcaacaca tggaactaat gaaaaatcag
     1981 aagttcatcc taccgtaact gaatggattt ctattgataa acgctcaact tatgaggaaa
     2041 gattcccata tatgcctgca agaataatag acaacttcat gaagagcggg tcgtatatat
     2101 cagtggtcaa ctggaatcaa atagaaaaca acccagaaac actcagaaaa ttaatagaca
     2161 tgacttataa cgatagagaa aaagcaacgt atgatatgtc gagagaaatg agaatgcata
     2221 attcatagta ctatccaagg agtagccttg gctactcctt taatttacca gttccactta
     2281 tctgtattga ttccaaactt aggcttcaca tcattaacaa agaaccgatt aacatcttta
     2341 aaacctttca aaatacgctc ataatcataa tactgcattt gtattttatt tatgctggtt
     2401 gcatggaatc tcatgacatc accgctaacc ctatcaacaa cctcatcctt gtctgatatg
     2461 tacttatacc aacgcttgta gttgttctgg tagttagtta gaaatctatt taacaccatg
     2521 agcatctcat tgctgaaatc ataaatctca cgatcttttt tagggtttag tatcttcatt
     2581 tcatcacgaa taaattggta agtctgataa tatgatgaaa taacctcatc aaaggcatca
     2641 acgttttttc ttaatttgaa aattgctctt tttgaatcta ggtgattttt tacacttttt
     2701 ttgtaaagtg tagcactctc attgaaaagt atattcactc caccaagact aagtttctca
     2761 accttaaccg aatacttttt aagtaagtag agggatacca tcagccaaat aaaaacagat
     2821 atcaaaagaa tggaaagggc gccagttaca agaggtctat tcttactaaa aactgtgtaa
     2881 acagacggaa tgtaattaga tatatcaaca gtacacatca cggcaataaa tgataaaaaa
     2941 gctatagtcc aaagagttac gaaggttttc atcttattcc accttttttt tcttgatata
     3001 aaaatacttc cgcctgctta ttcccatagc tacccaaggt tttatttcct ctaggcttcc
     3061 tttcctcctt gactgtcctg acttttttcc tctctttgat tgaatttcag aggagtgagt
     3121 aatatcaaca aatttactga actcttcagg tgaaaattta tttgatgtcc atttagcaat
     3181 gctcttagct atccctctta cctcattttc atccagaggc cgtgcaaatt gcaggttgta
     3241 tgcgcaagcg cgttcgtagc aggcttgcag ccactgctca tactcaggcc agccctgacg
     3301 gatggcgcga tatgcccact tacgggtttt gtcgaacaac gtgcagttac ggcctaagcc
     3361 gtagtcggca acgatttcct tgtcattccc tgtgttcaga tcgagaaagt cggccagcca
     3421 gtccagagtg tagagcttcg gctgccacac ggcgattttc cagtggttgt ggttcggatt
     3481 tttgcagatg agccccgaat atccagcgtc agcctctaat tttttacgta gcgcattctc
     3541 cacggaggcg gcgtagcgta acggttttat tttgccgtcc ggcgcggtgc gtatcgagtt
     3601 ttccagcgcg tacagcaggt gcgcgtgtcc gttttcgggg ttagttatgg tcagcgtcgg
     3661 tgcaggcgcg ttgcggtcgc tccagtcgat ggcggaaccg gcgcggtcaa cgtcaaatcc
     3721 cagccagaac atggcgtgag gctgattgaa ctggatatat ttcgccagaa tagcgcgttc
     3781 cttaccggcg atacggacac caaagtgcag atcgtccgaa aagtacggct tgtgtggtaa
     3841 gcgttcgttg aaaagttcga gtgcggcgtt atgcaatgtg ccctgcgctt atggcgggct
     3901 gttgtctggc acggttcatg tgctaatatc ctttcaaggt ttcgacctag ccctggttat
     3961 catgcgatcc gccaagatat gacatgattt ccggggcttt gttttttctg aggctaacgt
     4021 tacaccgact ttgcctctgt gtcgatctga cagcgactta ccctaacatc cgttgtacgc
     4081 cttgcatgaa aagcccgcat caagcgggct atatcgactt ttgctatttg tcaccatagt
     4141 gataacgggc tgcgtagatg atgatttctc cgttctggat tgaatagacc agacggtggc
     4201 tctgatcaat cctgcgggag tagagtgccg gatctttgtg gtgccgcagc cgttcgggtt
     4261 ttcctatacc tgtcagcgga tcagcctcga tgctgagcaa cagttgccgg atacgctcaa
     4321 acttcttttt gtcagtatca cgccaatagt taaggtcatc agcgccattc ctagtgaact
     4381 taatattcca cttcgacaaa ttcgccgcgc tccgcctgtt tcattgactc attgatatgc
     4441 tctgcgttcg ccggattgct gaacagatag accgtttcga ttagcgcctc atactctccc
     4501 gcatcgatca taacaatatc aggcgcatca cggcgcatga cacgtaccgg ttcagcatca
     4561 tcagtgacgc gcttcatcgt ctcggcaaaa tgtttacggg catcagtaaa attgattgca
     4621 tgcatgttgt taacccccat ttgttggggc ttagcataga acatgtacgc aaataagtac
     4681 atataggtat ttccctaaca acccacaacc aaatcagctc aaaatgtgaa ctcaatcgaa
     4741 taaccacaaa aacaacaagt caatacattg aagcataatt tcaagcaatt acatttatga
     4801 agtgcggcac aatttcgtac cgctaggagc taagctccta aaacgagcaa aggaaaagta
     4861 aatggcaaaa cattggtctg ggcaagaatg tccaaaaaca ggtacttacg gtcaatatca
     4921 tgataccgac aactcat
//
