LOCUS       NZ_CP084841             4134 bp    DNA     circular CON 10-JAN-2024
DEFINITION  Klebsiella pneumoniae strain SB612 plasmid pKp_SB612_11, complete
            sequence.
ACCESSION   NZ_CP084841
VERSION     NZ_CP084841.1
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 4134)
  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  JOURNAL   Unpublished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 4134)
  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
            CP084841.1.
            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..4134
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="SB612"
                     /host="Water"
                     /db_xref="taxon:573"
                     /plasmid="pKp_SB612_11"
                     /geo_loc_name="Netherlands"
                     /collection_date="2000"
     gene            join(3458..4134,1..529)
                     /gene="mobQ"
                     /locus_tag="LGM16_RS29120"
                     /old_locus_tag="LGM16_29120"
     CDS             join(3458..4134,1..529)
                     /gene="mobQ"
                     /locus_tag="LGM16_RS29120"
                     /old_locus_tag="LGM16_29120"
                     /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="MobQ family relaxase"
                     /protein_id="WP_136049309.1"
                     /translation="MALYRLEMQNVSRANGVSSVAKAAYRHRSVMIDERTGEIHGEKSA
                     NRDDLVYAEILAPDNTPDFLIKSSNDLWGFVEQTEKRKDARTAKEFKITLAHELSNEQN
                     IALMKDFLLNHFVDKGIICDFVLHNDKDNKNPHAHVMITTREITTNGFGKKVRSWDEEK
                     TLHDWRKQWAKVQNKHLKNAGLKSRVSHRTLEEQKNIMIDLAKKAEDAKDFDKSILYLA
                     KAIELDRPPMQNLSRKKWRSKEGQEQRKRDQAIRDKAREDARAVRVLRGVAVVDVASFT
                     VHPLQKKEQSKNNDFSEKKSWWRSTVNFIKNIKAKFSTKKDIKNDVHASDDLMTDPVTG
                     LIITKQKWQEMSDRANVRTPQAAISYQVKQSYADSEKTPQNALQDVLEHAHRAGSAKRK
                     MR"
                     /name="mobQ"
     gene            924..1799
                     /locus_tag="LGM16_RS29125"
                     /old_locus_tag="LGM16_29125"
     CDS             924..1799
                     /locus_tag="LGM16_RS29125"
                     /old_locus_tag="LGM16_29125"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019843928.1"
                     /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_136049308.1"
                     /translation="MLIQEEYNRDKYINQIQSWVLCADDFENGTYRKPKNKALNKKYIG
                     YNNNYFMNGFVFDIDQPEGAIAWDDCGLPKPNIIIQNTKNGHAHLLYALKAPVCKTDNA
                     RTKPLKLASLIQKGFTDRLKADRAYADVLMKNPINEAEWRTIWGNVEAYDLSYLSEFIP
                     DDIQEQKRLPADGLGRNVNLFEDLRQYAYKSVLNFKEKSNYEIWERELILKADGLNTFC
                     NGSNLLSYNEIKATAKSVAKWTWRNFNKECFSSIQSFRGKKNAGKKKTKVRSKAKSNKM
                     LEQIMKADAE"
                     /name="replication initiation protein"
     gene            1805..2077
                     /locus_tag="LGM16_RS29130"
                     /old_locus_tag="LGM16_29130"
     CDS             1805..2077
                     /locus_tag="LGM16_RS29130"
                     /old_locus_tag="LGM16_29130"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000125721.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="HTH domain-containing protein"
                     /protein_id="WP_136049307.1"
                     /translation="MAAIRAVKRKNTAKYLSKKLGIHERTVRRYIALPREDYESEAESR
                     RKTAYNLHFKDGLKWRDVAEKMNTTEHAVKALAKRYKQIDQIERG"
                     /name="HTH domain-containing protein"
     gene            complement(2093..2368)
                     /locus_tag="LGM16_RS29135"
                     /old_locus_tag="LGM16_29135"
     CDS             complement(2093..2368)
                     /locus_tag="LGM16_RS29135"
                     /old_locus_tag="LGM16_29135"
                     /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_136049306.1"
                     /translation="MSQKKVQKEEEKPTAGPLRKHRSRAEKIDDLKKQISDLRKAEREE
                     RQKARDEKLLAIGKAVYEKAGKPKNIYGLQQFVESEEFKVDFKNDF"
                     /name="hypothetical protein"
     gene            complement(2501..2779)
                     /gene="traD"
                     /locus_tag="LGM16_RS29140"
                     /old_locus_tag="LGM16_29140"
     CDS             complement(2501..2779)
                     /gene="traD"
                     /locus_tag="LGM16_RS29140"
                     /old_locus_tag="LGM16_29140"
                     /inference="COORDINATES: protein motif:HMM:NF018152.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="conjugal transfer protein TraD"
                     /protein_id="WP_064184314.1"
                     /translation="MGSKKTLEQRMALAQDRLSKLKKEASEKERKAREHIKFKAGGEVT
                     RVFGLDYDEAVLLGFLAIYDKLKPEQKAQIKIDGENIIKSRLENADK"
                     /name="traD"
     gene            complement(2769..3164)
                     /locus_tag="LGM16_RS29145"
                     /old_locus_tag="LGM16_29145"
     CDS             complement(2769..3164)
                     /locus_tag="LGM16_RS29145"
                     /old_locus_tag="LGM16_29145"
                     /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_136049310.1"
                     /translation="MNKKEIEKRLLIFTSEIDIEDIKNDFINDEVNEDAFTGYLNLYYA
                     IDNAIYNNKRSLFEALVYLINKDSENKDHEEPIITDYDLVYLTLNNYINIYELKRLFLL
                     QKNINDFDFKSTMSEIEKIKREVENGK"
                     /name="hypothetical protein"
     Typing          3..487
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="89.506"
                     /coverage="92.0"
                     /evalue="1.06e-64"
     Typing          3549..4132
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="89.744"
                     /coverage="92.0"
                     /evalue="2.98e-102"
ORIGIN
        1 actagatcgc ccaccgatgc agaacctatc acgtaaaaaa tggcgttcta aagaggggca
       61 ggaacaacgc aaacgtgacc aagctatcag agataaggca agagaagatg caagggctgt
      121 cagggtgttg aggggtgttg cagttgttga tgttgcttca ttcacagttc atccactgca
      181 gaaaaaagag cagtcaaaaa ataatgactt ttcagaaaaa aaatcatggt ggcgttctac
      241 tgttaatttt ataaaaaata ttaaagctaa gttctcaacc aaaaaagata ttaaaaacga
      301 tgtccatgca tcagacgatt taatgactga tccggtgact ggtttgatta ttacgaagca
      361 aaaatggcag gagatgagtg acagggcaaa cgtgaggact ccacaggctg cgatctcata
      421 ccaagttaag caatcatacg ctgacagtga gaaaacgcct cagaatgcgt tacaggacgt
      481 tttagagcac gctcatagag caggaagcgc aaaaaggaag atgcgataat cagatcacgg
      541 acaatacaaa ataggaaaga gagaaaaaat gagcatagtg ttatgtatat tatccttatg
      601 gatcagttgg ttaatggtag agccgcgagg ctttggcggt tttttagccg tactgatggt
      661 ttcagtagta atcgatatag tgctcatgtg ggtatacgca tacataagag ctttactcat
      721 ccttaggcgt taacacaaca caggcagggc aagccctgcc ttaagaccaa aaaaccgatc
      781 actatctgat atggttaaag ttgcccgact tgacacatac ggaaaaagtg ttagaacggt
      841 aacagaaaac aaaaaccccc gatttttcga tgtttggcga caggaaaaaa atcgggggca
      901 tataaaaaaa gggaaaacaa aatatgttaa tacaagaaga atataacaga gataagtata
      961 taaatcaaat tcaatcgtgg gttttatgtg ctgatgattt cgaaaacggc acatacagaa
     1021 agcctaaaaa caaagcatta aataaaaaat acattggcta taataacaac tattttatga
     1081 atggttttgt gtttgatata gaccaaccag aaggtgcaat cgcatgggat gattgcggat
     1141 tgcctaagcc taatataatt attcaaaata caaaaaatgg tcatgctcat ttgctttatg
     1201 ctttaaaagc tcctgtatgc aagacagaca acgctagaac aaaaccatta aagcttgcaa
     1261 gccttataca aaaaggattt acagatagat taaaagcaga tcgtgcatat gctgatgtgc
     1321 taatgaaaaa cccaatcaat gaagcagaat ggcgtacgat ttggggtaat gttgaagcgt
     1381 atgatctcag ctatctaagt gaatttatac cggatgatat tcaagaacaa aaaagattgc
     1441 ccgcagatgg tctaggacgc aatgttaatc tgtttgaaga cctaagacaa tatgcataca
     1501 aatccgtatt aaattttaaa gaaaaaagta actatgaaat atgggaaaga gaactgatat
     1561 taaaagctga cggattaaat accttctgta atggtagcaa tctattaagt tataacgaga
     1621 taaaagcaac agcgaagagt gttgcaaaat ggacgtggcg aaacttcaat aaggaatgtt
     1681 tttcatccat ccaatctttt agaggaaaaa agaacgctgg aaagaaaaaa acaaaagtta
     1741 gaagtaaagc caaaagcaat aaaatgttag aacagatcat gaaagcagat gcggagtaac
     1801 tattatggca gcaataagag cagttaaaag aaaaaataca gctaaatatt tatccaaaaa
     1861 attaggcatt catgaaagaa ctgtcaggcg ttatattgca ttacctcgtg aggattatga
     1921 atcagaagct gaaagccgca gaaaaacagc atacaaccta cattttaaag atgggttaaa
     1981 gtggcgtgat gtagctgaaa aaatgaatac aacagaacat gcagttaaag cattagccaa
     2041 aagatataaa caaatagacc aaatcgaaag gggctaggat gccccttcat ggttagaaat
     2101 cgtttttaaa atccacttta aattcttctg attctacaaa ctgctgcaag ccatagatat
     2161 ttttcggctt tcctgctttt tcataaacag ccttaccaat agcaagtaac ttttcatccc
     2221 ttgccttttg gcgttcttct ctttctgctt ttctcaggtc actaatctgc ttcttcaaat
     2281 cgtctatttt ttcagctcta gatctgtgtt ttctcagtgg cccagcggtt ggtttctctt
     2341 cttctttttg cacttttttt tgagacattt ttactctccc gatctgatat gttttttaaa
     2401 catatcacaa agccgggcta cggtgaagac taacgcacaa gccccgccag cggcgggttc
     2461 ttgcttgttc aacccttcca agtgtcagat tagaaatctg tcacttgtca gcgttttcta
     2521 gacgtgattt tatgatgttt tcaccgtcaa tttttatctg tgctttttgc tcaggtttca
     2581 gcttgtcata gatagctaga aaacccaaca aaacggcttc gtcataatct aaaccaaaca
     2641 ccctagtaac ttctccgcca gctttaaatt ttatatgctc ccttgctttc ctttccttct
     2701 ctgacgcttc ttttttaagt ttagataatc tatcttgtgc aagtgccatt ctttgttcta
     2761 acgttttttt acttcccatt ttcaacctct cttttaattt tttctatttc tgacatcgta
     2821 cttttaaaat caaaatcatt gatatttttc tgtaataaaa acaacctttt cagctcatag
     2881 atatttatat aattatttag tgttaaatac acaagatcat aatcagttat aattggttcc
     2941 tcatggtctt tattttcact atctttattt atcaaatata ccaacgcttc aaacaatgat
     3001 cttttattgt tgtatattgc attatcgata gcgtaataca gatttaaata cccagtaaaa
     3061 gcatcttcat taacttcgtc attgatgaaa tcgtttttaa tatcttcaat gtcgatctcg
     3121 cttgtaaaaa tcaatagtct tttttctatt tcttttttat tcattttatc acccaatata
     3181 tagattatat tttactcaat atcgtaactt ttaaatattg tcaaatttga ctttaattta
     3241 atcagagtta atttatatat atcagtgaaa gaaaaactat ataggttttc attcctcttt
     3301 tagtttgagc gttagcgaaa aataaaagat aaggaatgcc cggttacgca ttgtaaacaa
     3361 tgccggggtc tgccgacggc taaaacctgt ttttcttacg aaaaactaaa acccaaaccc
     3421 aaaacaaaaa taggggttct tatatgtgag gtattaaatg gctttatata ggttagaaat
     3481 gcagaacgta agccgtgcaa atggtgtcag ctcagttgca aaggcggctt atcgtcatcg
     3541 ttccgtcatg atagatgaac gaaccggaga aatacacggc gagaaatcag ctaatcgtga
     3601 cgatctagtt tatgctgaaa tattagcacc agataacacg cccgattttc tcattaaatc
     3661 gagtaacgat ttatggggtt ttgtcgaaca aacagagaag agaaaggatg ctagaaccgc
     3721 caaagaattc aaaattactt tggcgcatga gttatcgaat gaacaaaaca tcgcattgat
     3781 gaaagatttt ttattaaatc actttgtcga taaaggcatt atatgtgact ttgttttaca
     3841 taatgataaa gataataaaa acccacacgc ccacgttatg attactaccc gtgaaataac
     3901 cacaaatggt ttcggtaaaa aagtaagatc atgggatgaa gaaaaaacac ttcatgattg
     3961 gcgtaaacaa tgggcaaaag ttcaaaataa gcatttaaaa aatgctggct taaaatctcg
     4021 tgtaagtcat agaacgctag aagagcaaaa aaatataatg atcgatttag ctaaaaaagc
     4081 agaagatgca aaagattttg acaagtctat tttatatcta gcaaaagcta ttga
//
