LOCUS       NZ_CP084822             3631 bp    DNA     circular CON 10-JAN-2024
DEFINITION  Klebsiella quasipneumoniae subsp. quasipneumoniae strain 18A069
            plasmid pKqq_18A069_4, complete sequence.
ACCESSION   NZ_CP084822
VERSION     NZ_CP084822.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN22024801
            Assembly: GCF_020525805.1
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 3631)
  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  JOURNAL   Unpublished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 3631)
  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
            18A069
            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 04:28:27
            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)                     :: 5,397
            CDSs (total)                      :: 5,264
            Genes (coding)                    :: 5,141
            CDSs (with protein)               :: 5,141
            Genes (RNA)                       :: 133
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 20
            Pseudo Genes (total)              :: 123
            CDSs (without protein)            :: 123
            Pseudo Genes (ambiguous residues) :: 0 of 123
            Pseudo Genes (frameshifted)       :: 50 of 123
            Pseudo Genes (incomplete)         :: 71 of 123
            Pseudo Genes (internal stop)      :: 28 of 123
            Pseudo Genes (multiple problems)  :: 21 of 123
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP084822.1.
            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..3631
                     /organism="Klebsiella quasipneumoniae subsp.
                     quasipneumoniae"
                     /mol_type="genomic DNA"
                     /strain="18A069"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /sub_species="quasipneumoniae"
                     /db_xref="taxon:1667327"
                     /plasmid="pKqq_18A069_4"
                     /geo_loc_name="Spain"
                     /collection_date="1997"
     gene            join(3580..3631,1..140)
                     /locus_tag="LGM21_RS26970"
                     /old_locus_tag="LGM21_26970"
     CDS             join(3580..3631,1..140)
                     /locus_tag="LGM21_RS26970"
                     /old_locus_tag="LGM21_26970"
                     /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="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_011977837.1"
                     /translation="MTKQQKTALNMAKFIQHQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            140..541
                     /locus_tag="LGM21_RS26975"
                     /old_locus_tag="LGM21_26975"
     CDS             140..541
                     /locus_tag="LGM21_RS26975"
                     /old_locus_tag="LGM21_26975"
                     /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_065807469.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHPAKLTESPTPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(1657..2586)
                     /locus_tag="LGM21_RS26980"
                     /old_locus_tag="LGM21_26980"
     CDS             complement(1657..2586)
                     /locus_tag="LGM21_RS26980"
                     /old_locus_tag="LGM21_26980"
                     /inference="COORDINATES: protein motif:HMM:NF027286.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF4760 domain-containing protein"
                     /protein_id="WP_023307555.1"
                     /translation="MKEKIKKFGLPWICLFIVYFVCFLVVAATIIRHVINTTEEITLTT
                     YITPIFGLASLFVAMVTIRYNAVTNKEKNALDFVKEFKEKEIHDAMVEIYKTRRKYKNK
                     TNNRLNRKDISPYCEKAAAISQDDIKVIIPAEKKLELAEQIDLLTEEMKYTSSPSAKSK
                     IRGKISSLQKKLNDSNELEQICKFRSALIKVLNLMERCANGVRYGLYDEGLIYNSYGTQ
                     FIEIYELAFSFIKRRQDDEDKLFINAEWLAVKWTLQKEIQEDKPTFMTNQKRAIQHANE
                     GLKSHLKAPDKSKLEPLLNNLQKLKFPR"
                     /name="DUF4760 domain-containing protein"
     gene            complement(3062..3175)
                     /locus_tag="LGM21_RS27060"
     CDS             complement(3062..3175)
                     /locus_tag="LGM21_RS27060"
                     /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="replication initiation protein"
                     /protein_id="WP_071787400.1"
                     /translation="MHEPPVQSDCCVLSGNYHLESNPVRHAKAPLAAAIGN"
                     /name="replication initiation protein"
     Typing          complement(3063..3439)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.296"
                     /coverage="92.0"
                     /evalue="7.61e-175"
ORIGIN
        1 agtctctgct cctgctggag aagcttaacg agcttgatct tgatgctgag gccgaccttt
       61 gtgagaaact ccacgatgat gcggagcatc ttttccgtac actgtcctcg agactggatg
      121 cattacagga tggtaactga tggccagagt gtctattagt gaggctgccc gactgacggg
      181 taagagtaga acaacactgc acaggttaat taaagcaggt gacctgtcca cctgtagcgg
      241 tgaacgcaat gcaaaaatgg tagatacttc agagctttta cgtgtctttg gtccctttga
      301 acaaccgaag ggtgaacacc attctggaca ggtctctgaa cagcgtgata cagcctctgc
      361 tgaccagagt gaacaggtga ttcgtcatct gaaacaggag attgaacacc tgaacacttt
      421 acttttgtcc aaggattcgc acattgacag cctgaaacag gccatgctcc ttcttgaaaa
      481 tcacccggca aaattaactg aatccccgac gccatggtgg aaattctgga aaaaatcctg
      541 accccgtcat gcttcagttt tcctctccgg ccatcccggg gagttcctga accttcccaa
      601 aaatcgtcag atctctgaac gctcctcacc actaaaaata cccacacccc acgcaaaatt
      661 aaaattttga agataactca ttaatatcag ttagttgtgg gttattaaat tacgcagtat
      721 tactttctgt aaggtgaatc caagtcgtcg gcgattcgtg tacgacttgc cgacgactcg
      781 ccatagagtc atcgacgact cactttagac tatcagtaac ttatgacgac ttgactctag
      841 agtcgaatcg tcattttggt gtttttttga ccttggcgac tctagagtca agtcacgagt
      901 cgaatcgccg gtgaatcgtg tggtgagtcg tccggcgact tgccataacg tgattgccgg
      961 ccgtcaacga acccgattcc tgatcgtgct gaaaaccggt tttccggctg cgccggcaac
     1021 gcttcacggc cacgcaataa attgcgtccc cgttcaccgt tttcggatag gaagaacgtc
     1081 ggaaacagga cttaccctgg ctgaatggcg tgaattttcg cgctatgcac ttgcgtgcat
     1141 actcatgcat gccgtaaaaa cagagcctgc gcgtttctgg cgggttttcg ggtggtttgt
     1201 tgcctgtttt accggtttcc cgtcagaaac gccctgaggc cgttttagcg gtgcgtacaa
     1261 tcagggcttt atgttaaata ctctcgcact agaaataaca gaggctcact ggagaacctc
     1321 tgttgaaact tatcttttat cattcttagc aggtgcactc atgcggtctg tttccgcatt
     1381 tttcacagtc attacaacgc ttacagacat aatccacctc tttctgatta cactctctgc
     1441 agtagctgca agtgcaagcg ctaccaggta agccgcgtcc gtcacaaatt ttgtccattg
     1501 gatccatatc tacatccttt gtgtggcttt tttagcgtgc aatttcagtg atcacaactg
     1561 acgagttcgt aaggacggat tgatgagagg gaaacccctg tatttcaggg gtttacattc
     1621 catataatgc aaattacgcg gcctgataaa aactttttat cgcgggaatt tcagtttttg
     1681 taagttgtta agcaatggtt ctaatttgct tttatctggt gctttcaggt gtgatttcag
     1741 cccttcgtta gcatgttgta tagctctctt ttgattagtc ataaatgttg gcttgtcttc
     1801 ctgaatctct ttttggagag tccattttac tgctaaccat tcagcattta tgaataactt
     1861 atcttcatca tcctgccttc tttttatgaa tgagaaggcg agctcatata tttcaatgaa
     1921 ctgggttcca tatgagttat atataagacc ttcatcgtat agaccatatc tcacaccatt
     1981 tgcacatcgc tccattaaat ttaacacttt aattagagct gatctgaatt tgcaaatttg
     2041 ttctaattca ttgctatcat tgagtttttt ttggagtgag gatatttttc ctctgatttt
     2101 tgattttgcg cttggggatg aagtgtattt catctcctca gtgagtagat ctatttgctc
     2161 agcaagttct agtttttttt ctgcgggtat gattactttt atatcatcct gagatatggc
     2221 ggcggctttt tcgcagtaag gtgagatgtc ttttctgttt aatctattgt ttgttttgtt
     2281 tttatacttt cttcttgttt tatatatttc aaccattgca tcatgtattt ctttttcttt
     2341 gaattctttt acgaaatcca atgcattttt ttctttattg gtaacagcat tgtatcgtat
     2401 ggttaccata gcaacaaata agctggcgag tccaaatatt ggcgttatat atgtggttaa
     2461 tgttatctct tcggttgtat ttattacatg cctgataata gtggctgcga ctactaaaaa
     2521 acatacaaag tagacaataa aaaggcatat ccaagggagg ccaaattttt ttattttttc
     2581 tttcatgtgt atgccgctat gtgggttata gcggcgtttt actatcagaa aatgcctaag
     2641 tcaatctctc taacgatttg ggtcattttt tcgacaacgt taagcttctg cataggatta
     2701 cctctcaatc gaggtggtaa tgattatcat tatcacctct acataatgta gagccccata
     2761 tgtacatggg tttcctcggc aagtaaatgc ctacaagttt aagtttagtt aaaaaatgtg
     2821 agttcgatta gtcattaagg gtaaattcac catgaaagat cttcttgaga tcctctgacg
     2881 atcatcgtaa tcttttggca tacaaacgaa aaaaccaccc ggcaaggtgg tttttcgagg
     2941 gttcagtaaa ccggcaagtt tctgaaccga ggtaactggc tagtagagga gcacagtcac
     3001 caaaactgtt cgtttagttt agccttaacc ggcgtataac ttcaagacta tctcctctaa
     3061 atcagttacc aatggctgct gccagtggcg cttttgcatg tcttaccggg ttggactcaa
     3121 gatgatagtt accggataag acgcagcagt cggactgaac ggggggttcg tgcatacagt
     3181 ccagcttgga gcgaactgcc tacccggaac tgagtgtcag gcgtggaatg agacaaacgc
     3241 ggccataaca gcggaatgat accggtaaac cgaatggcag gaacaggaga gcgcacgagg
     3301 gagccatcag ggggaaacgc ctggtatctt tatagtcctg tcgggtttcg ccaccactga
     3361 tttgagcgtc aaattctgtg atgcttgtca ggggggcgga gcctatggaa aaacggcccc
     3421 tgcgcggcct tctccctctc cgtgctgcct gtcctatgtc gttatgtgcg cgttgcgacc
     3481 gctcgccgca gccgaacggc aggagcgtag cgactgagtg agcgaggaag cggaaaagag
     3541 actggtttta cactgagcac tgacgctctg aggcttctta tgacgaaaca acagaaaaca
     3601 gcgctgaaca tggctaaatt catccagcat c
//
