LOCUS       NZ_CP084842             4090 bp    DNA     circular CON 10-JAN-2024
DEFINITION  Klebsiella pneumoniae strain SB612 plasmid pKp_SB612_12, complete
            sequence.
ACCESSION   NZ_CP084842
VERSION     NZ_CP084842.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN22024796
            Assembly: GCF_020525965.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4090)
  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  JOURNAL   Unpublished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 4090)
  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 pneumoniae SB612
            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 04:31:38
            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)                     :: 5,833
            CDSs (total)                      :: 5,708
            Genes (coding)                    :: 5,547
            CDSs (with protein)               :: 5,547
            Genes (RNA)                       :: 125
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 161
            CDSs (without protein)            :: 161
            Pseudo Genes (ambiguous residues) :: 0 of 161
            Pseudo Genes (frameshifted)       :: 60 of 161
            Pseudo Genes (incomplete)         :: 100 of 161
            Pseudo Genes (internal stop)      :: 26 of 161
            Pseudo Genes (multiple problems)  :: 23 of 161
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP084842.1.
            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..4090
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="SB612"
                     /host="Water"
                     /db_xref="taxon:573"
                     /plasmid="pKp_SB612_12"
                     /geo_loc_name="Netherlands"
                     /collection_date="2000"
     gene            929..1078
                     /locus_tag="LGM16_RS29150"
                     /old_locus_tag="LGM16_29150"
     CDS             929..1078
                     /locus_tag="LGM16_RS29150"
                     /old_locus_tag="LGM16_29150"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_017880354.1"
                     /translation="MPSEYDEQLDSTDTQLPGEYDLFDLMAQVTEENLHAPVDSGPPVG
                     REAL"
                     /name="hypothetical protein"
     gene            1560..1751
                     /locus_tag="LGM16_RS29155"
                     /old_locus_tag="LGM16_29155"
     CDS             1560..1751
                     /locus_tag="LGM16_RS29155"
                     /old_locus_tag="LGM16_29155"
                     /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_032421723.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1751..2152
                     /locus_tag="LGM16_RS29160"
                     /old_locus_tag="LGM16_29160"
     CDS             1751..2152
                     /locus_tag="LGM16_RS29160"
                     /old_locus_tag="LGM16_29160"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /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_048333944.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQSKSEHHSGQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPTPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            3126..3446
                     /locus_tag="LGM16_RS29165"
                     /old_locus_tag="LGM16_29165"
     CDS             3126..3446
                     /locus_tag="LGM16_RS29165"
                     /old_locus_tag="LGM16_29165"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017134632.1"
                     /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 transcriptional regulator"
                     /protein_id="WP_048333940.1"
                     /translation="MLNKFSSPFELFAKDAVELNMLSLKSKLLIIIAEMIRGEGWSQAA
                     AADKLGVSQPRVSNLMNGHVSKFAIDTLLEMLCRIGFVVDVTFRPHDEESPLHVSVKKA
                     VV"
                     /name="helix-turn-helix transcriptional regulator"
     gene            complement(3472..3792)
                     /locus_tag="LGM16_RS29170"
                     /old_locus_tag="LGM16_29170"
     CDS             complement(3472..3792)
                     /locus_tag="LGM16_RS29170"
                     /old_locus_tag="LGM16_29170"
                     /inference="COORDINATES: protein motif:HMM:NF017757.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_136049312.1"
                     /translation="MAQLELKMEKVIEKEFRALENRKVQEAFAVDLEMIMNGLKPLSSS
                     KPLNGLGKGVFELKKNGRPAYRCVYVVKNNTLYVLHVYSKTSDGTPKHHEDTIKKRFKS
                     VK"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     Typing          complement(250..774)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.057"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cgtcaaagag ggggaagatc cttgacgatc gtttgggtgg cggcgtagtc tagcgacaga
       61 aaagaaaaaa ccgcctgggg aggcggtttt ttcaacggtt tagtaggttg gggaacttac
      121 taaaccaagg taactggcta ttcacggagc gcagatacca aatactgtcc tttcagtgta
      181 gccgtagtca ggccgccact tcaagaactc ttgcacacta aagtgcgtaa tcaagctccg
      241 tgaaccctgt taccaatggc tgctgccagt ggcgcctcgt cgtgtttttc cgggttggaa
      301 tcaagttgaa agttaccgga aaggcgtagc agtcggactg aacggggggt tcgtgcatac
      361 agtccagctt ggagcgaact gcctacccgg aactgagtgt caggcgtgga atgagataaa
      421 cgcggccata acagcggaat gacaccggta aaccgaaagg caggaacagg agagcgcacg
      481 agggagccac cagggggaaa cgcctggtat ctttatagtc ctgtcgggtt tcgccaccac
      541 tgatttgagc gtcagatttc gtgatgcttg tcaggggggc ggagcctatg gaaaaagcgc
      601 cgctggcgcg gcctttgttg tgtggcgcct tattccctga atctgtggat tcatcatgag
      661 cttgttgtgt gagtacaggt aacgcccgcc gcagccgaac ggcaggagcg tagcgactga
      721 gtgagcgagg aggcgtcata tccccgggct tccattttct cccgtacgcc ccgccgctgc
      781 actttcctct gtcacatgaa gcactttcat aacgtgttac tccaccgtag catattgagc
      841 ccgtatacac tccgctagtg ctactcgact ggttcagggc tgcgcccaga aacccgctaa
      901 caacctctca gctactggat atcaccccat gccatctgaa tatgatgaac aactggattc
      961 gactgatacg cagcttcccg gcgaatatga cctttttgat ttaatggcgc aggttactga
     1021 agagaacctg catgcccctg tggattctgg gccgcctgtc ggccgggaag cgttatagct
     1081 tttttcgctt gcccgcgtac gtggtaatac gccggtatta cattttattt ctttattttc
     1141 atgtaattac aggtgattgt aatacgttgc gtattacata aataaacgga gatttcagtt
     1201 tttacttttt aattcatgca gttgcgatga aaatcgcggc tgcgttaggt gtatgaccat
     1261 ttaagggcca aaaaattatc attctggccg ggtgatctgc ggaggttaag gggcgtcggt
     1321 gacaaaaaaa cgtcattaac gacctcgttc atgctcgcat gaacggatta tttttccgga
     1381 ctacaggtaa actacagaaa gactacaaaa gctgatgact taatcctgat ttttagtgcg
     1441 atgactacag ataaactaca aaataactac aggattacct cagatccgtt ctctgaacca
     1501 ttcgtacatc cgaccccctt accggtttta cactgagcat tgatgctctg aggtccctta
     1561 tgacgaaaca acagaaaaca gcgctgaaca tggctaaatt catccagaat cagtctctgc
     1621 tcctgctgga gaagcttaac gagcttgatc tcgatgctga ggccgacctt tgtgagaaac
     1681 tacacgatga tgcggagcat cttttccgta cactgtcctc gagactggat gaattacagg
     1741 atggtaactg atggccagag tgtctattag tgaggccgcc cgactgacgg gtaagagtag
     1801 aacaacactg cacaggttaa ttaaagcagg tgacctgtcc acctgtagcg gtgaacgcaa
     1861 tgcaaaaatg gtagatactt cagagctttt acgtgtcttt gggccctttg aacaatcgaa
     1921 gagtgaacac cattctggac aggtctctga acagcgtgat acagcctctg ctgaccagag
     1981 tgaacaggtg attcgtcatc tgaaacagga gattgaacac ctgaacacct tacttttgtc
     2041 caaggattcg cacattgaca gcctgaaaca agccatgctc cttcttgaaa atcaccaggc
     2101 aaaattaact gaatccccga cgccatggtg gaaattctgg aaaaaatcct gatcccgcca
     2161 tgcttgagtt ttcctctccg gccatcccgg ggagttcctg aaccttccca aaaatcgcca
     2221 gatctctgaa cgctcctcac gactaaaaat acccacacac cacgcaaaat taaaattttg
     2281 cagatagctc cttaatatca gttagttaga tgttattaaa ttacgctgta ttacattctg
     2341 taaggtaaat ccaagtcgtc ggcgattcgc gtacgacttg tcgatgactc gtcatagagt
     2401 catcgacgac tcacttaaga ctatcagtaa cttatgacga cttgactcta gagtcgagtc
     2461 gtcattttgg ttttttttga ccttggtgac tctagagtca agtcacgagt cgaatcgccg
     2521 gtgaatcgtg tggtgagtcg tccggcgact tgccataacg tgattgccgg ccgtcgacga
     2581 acccgattcc tgaacgtgct gaaaacgggt tttccggctg cgccggcaac gcctcacggc
     2641 cacgcaataa attgcgcatc cgttcaccgt tatcggggtg gttcgtggtg gctttcaggg
     2701 cgttcatcgg attttagcgg ctaaaatccc ggccaggtat gtccgtgcat agccatgcag
     2761 tcgcgccaga atcatcaggc gcgttttttc acgatatgga cagggaaagg tgccggaaac
     2821 aggcgggagg gcgcagaaac gcgctgaggg cgtctgaggc ggtgcggcca acggatgtta
     2881 tggtaaatcc gttctaaagc acgatagttt ttgccaacat acactacaaa attgttgacg
     2941 aaaggggttg acgggatgaa gtgaagcgaa ctataacaag tcttcagtgt ctatatatat
     3001 acttatatat cttgcactgg ggcgtgtatt gcgtataata cagcgcccat gagatgtgga
     3061 ttgagtgctt tttgaccgct ctattctaat gaacatgcaa cgcatagacg aagaggagga
     3121 tttgtatgct aaataaattt agcagtccgt ttgaactctt tgctaaagac gcagttgagt
     3181 tgaacatgct cagcctgaaa tcaaagctgc ttataatcat cgctgaaatg atcagaggcg
     3241 agggttggtc gcaagcggct gctgcggata agcttggagt tagtcagccc cgcgttagta
     3301 acttaatgaa tgggcatgta tccaagtttg ccattgatac gctccttgag atgctgtgcc
     3361 gcattggatt tgttgtggat gtgacctttc ggccgcatga tgaagaaagt cctttgcatg
     3421 tgagcgtaaa aaaggcggtt gtgtgagaac cgccttgcgt aatttaatta tttattttac
     3481 tgatttaaaa cgttttttta ttgtgtcttc gtgatgcttt ggtgtgccgt ccgatgtctt
     3541 actgtatacg tgaaggacgt atagtgtgtt gttttttact acataaacac atctgtaagc
     3601 cgggcggccg tttttcttta gttcaaaaac tccttttcct aatccattta gtggctttga
     3661 tgatgacaac ggtttgagcc cgttcattat catttcgagg tctacagcaa aagcctcttg
     3721 caccttcctg ttttctagtg cgcgaaattc cttctctata actttctcca ttttcaattc
     3781 tagttgtgcc ataaatcctc ctgcactcgt ttagattaag gtgttcatac ataaaccctc
     3841 gattgtttag tgtttgccag agccatgaat ttcagggtgc tctgacccaa tttaacctag
     3901 gaagtataac ctgggcatat tctgaaatta aagaggtgac atataaatat ttgtataaat
     3961 tagattattt tttcgccgaa tgtcattttt gccatctctt atgccggaac atggctatta
     4021 aaatagtgga tgaaatctgt ttttctttta aaaaaagaag ttatatctaa aggtggtttt
     4081 gcgttgaggt
//
