LOCUS       NZ_CP084840             7076 bp    DNA     circular CON 10-JAN-2024
DEFINITION  Klebsiella pneumoniae strain SB612 plasmid pKp_SB612_10, complete
            sequence.
ACCESSION   NZ_CP084840
VERSION     NZ_CP084840.1
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 7076)
  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  JOURNAL   Unpublished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 7076)
  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
            CP084840.1.
            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..7076
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="SB612"
                     /host="Water"
                     /db_xref="taxon:573"
                     /plasmid="pKp_SB612_10"
                     /geo_loc_name="Netherlands"
                     /collection_date="2000"
     gene            join(6811..7076,1..136)
                     /locus_tag="LGM16_RS29100"
                     /old_locus_tag="LGM16_29100"
     CDS             join(6811..7076,1..136)
                     /locus_tag="LGM16_RS29100"
                     /old_locus_tag="LGM16_29100"
                     /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_064175855.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGELSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGVYHSGQVAEQRDTASAEQSEHVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENNQAKLTESPAPWWKFWKRS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(875..3772)
                     /locus_tag="LGM16_RS29105"
                     /old_locus_tag="LGM16_29105"
     CDS             complement(875..3772)
                     /locus_tag="LGM16_RS29105"
                     /old_locus_tag="LGM16_29105"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020326821.1"
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /GO_process="GO:0006313 - DNA transposition [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Tn3-like element Tn5403 family transposase"
                     /protein_id="WP_000091108.1"
                     /translation="MSRRHIFTERQRAALFDLPTDELSLLKFYTLGDDDLENIRQRRRP
                     ENRIGFALQLCALRYPGRALAPGEMIPREVLSFVGAQLGVPADALLTYATRRQTRQQHM
                     DTLREIYGYKTFTGRGARDLREWTFGQAEDARSNEDLAHRFIVRCRETSTILPAVSTIE
                     RLCADALVAAERRIETRIAENLTADVRDHLDKLLSEMLAGNISRFIWLRNFEVGNNSAA
                     ANRLLDRLEFLRTLNINHSALASIPAHRIARLRRQGERYFTDGLRDITSDRRWAILAVC
                     VVEWEAAIADAIVETHDRIVGKTWREAKRQHDETISGSKATLTDTIRTFTALGASLLEA
                     RSDGTPLEMAVASSVAWDRLAQLVATGTQLSNTLADEPLAYVGQGYHRFRRYAPRMLRC
                     LKLEAAPVAGPLVAAALSIGEMKGVASPERRFLRPNSKWNRHLRAQEKGDTRLWEVAVL
                     FHLRDAFRSGDVWLAHSRRYGDLKQVLVPMIAAQENAKLAVPSNPQDWLADRKARLTIA
                     LKRLARAARNGTIPHGSIEDGTLRIDRLTADVPDGAEALILDLYRRMPSVRITDMLLEV
                     DAALGFTDAFTHLRTGAPCRDRIGLLNVLLAEGLNLGLRKMAEATNTHDYWQLSRLARW
                     HVESEAMNQALAIVVAAQGKLPMSRVWGMGTSASSDGQFFPTARHGEAMNMVNAKYGSV
                     PGLKAYTHVSDQFAPFACQSIPATVSEAPYILDGLLMNEVGRHVREQYADTAGFTDHLF
                     GASSLLGYNLVLRIRDLPSKRLYVFNPDTTPRELRKLVGGKAREDLIVANWPDIFRCAA
                     TMTAGKIRPSQLLRKLASYPRQNNLAVALREVGRIERTLFIIEWILDTDMQRRAQIGLN
                     KGEAHHALKNALRIGRQGEIRDRTTEGQHYRIAGLNLLTAVIIYWNTVHLGHAVTERRN
                     EGLDVPPEFLPHISPLGWAHILLTGEYLWPKEPKA"
                     /name="Tn3-like element Tn5403 family transposase"
     gene            3867..4472
                     /locus_tag="LGM16_RS29110"
                     /old_locus_tag="LGM16_29110"
     CDS             3867..4472
                     /locus_tag="LGM16_RS29110"
                     /old_locus_tag="LGM16_29110"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001549957.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0000150 - DNA strand exchange activity [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="recombinase family protein"
                     /protein_id="WP_000509966.1"
                     /translation="MGHRAAIYCRVSTADQSCERQEFDLRAFAGRAGYDVVGIFKETGS
                     GTKLDRAERKKVLALAQSRQIDAILVTELSRWGRSTLDLLNTLRELENWKVSVIAMNGM
                     AFDLSSPYGRMLATFLSGIAEFERDLISERVKSGLAVAKARGKRLGRQAGVRPKSDRLL
                     PKVVAMRAEGRSYRWIARELGISKNTVADIVQRHRANA"
                     /name="recombinase family protein"
     gene            6620..6811
                     /locus_tag="LGM16_RS29115"
                     /old_locus_tag="LGM16_29115"
     CDS             6620..6811
                     /locus_tag="LGM16_RS29115"
                     /old_locus_tag="LGM16_29115"
                     /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"
     Typing          5784..5998
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="82.648"
                     /coverage="100.0"
                     /evalue="3.5099999999999995e-46"
     Typing          complement(5287..5803)
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="85.847"
                     /coverage="87.0"
                     /evalue="5.5e-153"
ORIGIN
        1 acacctgaac accttacttt tgtccaagga ttcgcacatt gacagcctga aacaggccat
       61 gctccttctt gaaaataacc aggcaaaatt aacggaatcc ccggcgccat ggtggaaatt
      121 ctggaaaaga tcctgatcct gccatgcttc agttttcctc tccggctata ccgcggagtt
      181 cctgaacctt cccaaaaatc gccagatctc tgagcgctct tcaccactaa aaatacccac
      241 accccacgca aaattaaaat tttgcagatt ccttatttac aacaatgggt taatgaaaaa
      301 taaatgtgcg gtgatgtgtt acaaagtgca gatccaagtc gtggacaact ctatggcgaa
      361 tcgctgacga attgcccacg attcatatgt gaatcacgct ttattatcat attgttatga
      421 tgaatcgact cttgattcaa ttcatcactc tgggtgtttt ttgttcatgg tgactcttga
      481 ttcaattcac gattcgaatc gccggtgaat cgtgtggtaa gtcgtccggc gacttgccat
      541 aacgtgattg ccggccgtcg acgaacccga ttcctgaacg tgctgaaaac cggttttccg
      601 gctgcgccgg caacgcttca cggccacgca ataaattgcg tccccgttca ccgttttcgg
      661 atgggaagaa cgccggaaac aggacttacc ctggctgaat ggcgtgaatt ttcgggctat
      721 gcacttgcgc gcatacgtat gcataccgtg aaaacggagc ctgcgcgttt ctggcgggtt
      781 ttcggggtgg ttgttgcctg ttttaccggt tttccgtcag aaacgccctg aggccgtttt
      841 aggggtcggt tccggctgag ggcgaaatga caccctaagc tttcggttcc ttgggccaaa
      901 gatattcgcc agtcagtaga atgtgcgccc agcccaatgg ggatatgtgg ggaagaaatt
      961 cagggggaac atccaaccct tcgttccgcc gctccgtgac ggcatgacca agatggacgg
     1021 tattccagta aatgatcacc gcagtcaata aattgagccc agcgattcgg tagtgctgcc
     1081 cctctgtcgt gcgatcgcga atttccccct gcctcccgat acggagcgca tttttgagcg
     1141 catggtgggc ctctcccttg ttaagaccga tctgagcacg ccgctgcatg tctgtatcca
     1201 ggatccactc aataatgaaa agggtccgtt caatacgacc aacttcacga agcgcaactg
     1261 caaggttgtt ttgtcgtggg taagaagcga gcttgcgcag gagttggctg ggcctgattt
     1321 tgccagcggt catcgtcgcg gcacaacgga aaatatcagg ccagttcgca acgataagat
     1381 cctcccgggc ttttccacct accaacttgc gtaactccct gggggtcgta tcgggattaa
     1441 atacgtacaa ccgcttcgat ggcagatccc tgattcgcag aacgagattg tagccgagca
     1501 ggctactggc tccgaacaaa tggtcggtga atcctgctgt atcggcatac tgttcgcgaa
     1561 catggcgacc gacctcgttc atcagtagtc catcgagaat atacggtgcc tcgctcacgg
     1621 tcgccgggat cgactgacaa gcgaatggcg cgaactggtc gcttacgtga gtatacgctt
     1681 tgaggccggg aacagaacca tatttggcat tgaccatgtt catggcttcg ccatgccgcg
     1741 ctgtcgggaa aaactgacca tcgctcgatg ctgacgtgcc catcccccag acgcgtgaca
     1801 tcggcagttt accctgcgcg gccaccacaa ttgccaatgc ctggttcatg gcttcgcttt
     1861 caacatgcca gcgggcaagg cgtgagagct gccagtaatc atgcgtgttt gtagcttccg
     1921 ccatcttacg caggcccaga ttgagccctt cagcgagcag gacgttgagc agaccgatcc
     1981 ggtcgcgaca tggagccccg gttctcagat gggtaaacgc atctgtgaaa ccaagggctg
     2041 catcaacttc aagcagcatg tcggtaatcc gaacggacgg cattcggcga tacagatcca
     2101 gtatgagtgc ctcggcacca tccggcacgt ctgctgtcaa cctgtcgatc cgcaacgttc
     2161 catcttctat gctaccgtgc ggaatagtgc cgttacgggc agcccgggcc agccgcttaa
     2221 gagcgatcgt gagtcgcgcc tttctgtctg ccagccaatc ctgtgggttg gaaggcacgg
     2281 ccagttttgc attttcctgc gccgcgatca tcggcaccag tacctgcttg aggtcaccat
     2341 agcggcgcga atgagcgagc cagacatctc cggaacgaaa agcatcccgg aggtgaaaga
     2401 gtaccgccac ttcccaaaga cgggtatctc ctttttcctg agctcgtaaa tgacggttcc
     2461 atttggagtt gggccgcagg aaacgccttt ctggcgatgc aacacctttc atctctccga
     2521 tcgacaaagc tgctgctacc aatggtccgg cgaccggcgc ggcttcgagc ttcagacagc
     2581 gcaacatgcg gggcgcataa cgacgaaagc gatggtatcc ctgcccgaca tatgcaagag
     2641 gctcatcggc tagcgtgttg ctgagttgag tccctgtcgc taccagttga gcgagccggt
     2701 cccatgcaac cgaactggcg acagccatct ccagcggggt tccgtcactg cgggcctcaa
     2761 gcaacgaagc tcccagcgcg gtgaaggtac ggatcgtatc cgtgagtgtg gctttagagc
     2821 cggaaattgt ttcgtcatgc tggcgcttcg cttcccgcca ggtttttcct acgatcctgt
     2881 catgggtttc gactatggca tcagcaatcg ccgcttccca ctccacaaca cagacggcaa
     2941 ggatcgccca gcggcggtcc gaagtgatgt cacgcaaacc gtcggtgaag tagcgttcac
     3001 cctgccgacg cagccgggca atgcgatggg caggtatgct ggccaaagca ctatgattga
     3061 tattcagggt acgcagaaat tcgagcctgt cgagcaaacg gttagcagca gccgagttgt
     3121 taccaacctc gaagttgcga agccagatga aacgactgat attgccggcg agcatttcac
     3181 tcagaagttt gtccaggtga tcgcgaacat ccgctgttaa attttccgca atccgcgttt
     3241 caatccgccg ctcagcggcg accagagcat ccgcgcacaa gcgctcgatt gtcgatactg
     3301 cgggcagaat ggtggaagtt tcccgacacc gcacaataaa acgatgagca agatcctcgt
     3361 ttgatctggc atcttcggcc tggccgaaag tccactcacg cagatcacgg gcaccacggc
     3421 ccgtgaaggt cttgtagccg taaatttcgc gcagcgtgtc catgtgctgc tgacgggttt
     3481 ggcgccgtgt ggcataagtg agaagcgcat cagccggaac tccaagctga gcaccgacga
     3541 aggaaaggac ttcacgcggg atcatctcac caggagccag tgcacggccc ggatatcgta
     3601 aggcacaaag ttgcagggca aagccaatcc tgttttccgg tctgcggcgc tgcctaatgt
     3661 tttccaggtc atcatcgccc agcgtgtaga acttcagtag cgacagttcg tccgtgggca
     3721 gatcgaacag cgctgctcgc tgccgttcgg tgaaaatatg gcgtcgtgac atacaaattc
     3781 gtcccttttg aagtatagtc tgttttggac aacagccagc ccatataaat cagggcgttc
     3841 cgatacaaaa atccaggagg gttcaattgg gacatcgtgc cgccatttac tgccgggttt
     3901 caacagcgga tcagtcttgt gaacgccagg aatttgatct gcgagccttc gccggccgtg
     3961 ccggctacga cgtggtggga atatttaagg aaacaggttc aggaactaaa ctcgaccggg
     4021 ccgagcgaaa gaaagtcctg gcgcttgccc agtccagaca aattgatgca atcctggtca
     4081 ctgagctttc ccggtggggg cgctcgacgc tcgatctgct caatacgcta cgtgaactgg
     4141 agaactggaa ggtttccgtg atagccatga atggaatggc gttcgatctt tcgtcgccgt
     4201 atggacgaat gctggcgacg tttctttccg gcattgcgga gtttgagcgg gatctcatca
     4261 gcgagcgggt caagtcaggc cttgctgttg cgaaggcacg tggtaagagg cttggtcgtc
     4321 aggccggagt gcgaccaaaa tcagaccgac ttttgcctaa ggtggttgct atgagggccg
     4381 agggacgcag ctatcgctgg atcgcacgcg agctcggtat cagcaagaat accgtcgctg
     4441 acatcgtgca acgacacaga gctaacgctt agggtgtcat ttcgccctca gccggaaccg
     4501 acccctttta gcggtgcgcg taatgagacg ttatggtaaa tctctaaagg caatatttcc
     4561 cgtcccttgg agcgaactac tctgtatttg atctttggtg ttgatacccc gctgcttgca
     4621 gagggggtat tcattatcgt tgttgtttgc tgtaattgtc taaaatatat ttggggatag
     4681 atacgggtac acattcagca gatattatgt ttttcccgga tatattatga taaatgtctt
     4741 tgtttgcaat gattttatct ttgaattcaa tgcattcttc attcagaatg aaggtgttaa
     4801 caacattgtc tttcattccc aaatttgcta attctgaaga acaacttgca atattattcg
     4861 tgttaaaaca agttgttagt attattgcgt atatgtatgg cattaaataa acctatttaa
     4921 aaaagtacgg aatgatagtg atcttgttcg gaaatatact agtcagactt taagtctcag
     4981 ggatatgaac ctagaacatc gttgtattaa cttgtttgag tgttccaatc ctgaatattg
     5041 atgttatttg agtataaagg aaacataata aatatcacaa ggatattggt taactattta
     5101 tttttaaata atttcttgag atctgacgtt ggacgtcgta gtctcttgcc atgtaaacga
     5161 aaaaaccacc ttgcagggtg gtttttcgaa ggttcagtaa accggcaagt ttctgaaccg
     5221 tggtaacagt cttgtgcgag acgtcaccaa atctgtcctt ttagtgtagc ctcagtctgg
     5281 ccaccacttc aagaactctt cgtaaatctc tcgcacatcc tgtttaccag tggccgctgc
     5341 cagtggcgtt aagtcgtgtc tttccgggtt ggactcaaga cgatagttac cggaaaaggc
     5401 gcagcggtcg ggctgaacgg ggggttcttg catacagccc agcttggagc gaactgtcta
     5461 aacggaacgg ggcgtggtga tttaggtaaa gcttccacca ctacacggat gccgcaggac
     5521 gggaacagga gagcgcaaga gggagccacc agggggaaac gcctggtatc tttatagtcc
     5581 tgtcgggttt cgccaccact gatttgagcg tcagatttcg tgatgcttgt caggggggcg
     5641 gagcctatgg aaaaacggct ttgccgcggc cttatcgtat ccctgttaag tttcttcctg
     5701 gcatccacca ggaaataaat ttccgcccca ttagtaagcc tgcaccgctc gccgcagccg
     5761 aacgaccgag cgcagcgagt cagtgagcga ggaagcggaa tatcacctga accagcatct
     5821 tctcctgacg ccggaaagcc tcatttcact cctgccacat gaagcacttt ggcaaattac
     5881 cacttcggtt taaaatattt agccagtatg cactccgcta gcgctacgtg actggttcag
     5941 ggctgcgccc cgaaacccgc taacacccct cagctattgg atatcacacc atgccatctg
     6001 agtatgatga acaaccggat gcgactgatg ctctgtttcc cggcgaatat gacctttttg
     6061 acttaatggc tcatgttact gaagagaacc tgcacgcccc ggtggattct ggcccgcctg
     6121 tcggccggga agcgttatag ctttttcgct ggccagcgta catgtaatac gctggtatta
     6181 catgttattt gtttattttc atgttgttac agatgattgt aatacgttgc gtattacgct
     6241 aatacacgaa ataactccat ttttttcatt taattcatgc agttgcgata aaaatcgcgg
     6301 ctgcgttagg tgtatgacca tttaaggggc aaaaaattat cattctggct gggtgatctg
     6361 cgcaggttaa ggatcatggg cgacgaaaaa gcgtctttaa ctgcttcgtt catgcttgca
     6421 tgaacggatt atttttccag actacaggta aactacagga agactacaaa agttgatgat
     6481 ttaatcctgc gttttagtgc gatgactaca gataaactac aaaataacta caggataacc
     6541 tcagatccgt tctctgaacc attcgtacat ccgaccccct taccggttta cactgagcac
     6601 tgatgctctg agggccctta tgacgaaaca acagaaaaca gcgctgaaca tggctaaatt
     6661 catccagaat cagtctctgc tcctgctgga gaagcttaac gagcttgatc tcgatgttga
     6721 ggcggacctt tgtgagaaac tccacgatga tgcggagcat cttttccgta cactgtcctc
     6781 gagactggat gcattacagg atggtaattg atggccagag tgtctattag tgaggctgcc
     6841 cgactgacgg gtaagagtag aacgacactg cacaggttaa ttaaagcagg tgagctgtcc
     6901 acctgtagcg gtgaacgcaa tgcaaaaatg gtagatactt cagagctttt acgtgtcttt
     6961 ggtccctttg agcaaccgaa gggtgtatac cattctggac aggtcgctga acagcgtgat
     7021 acagcctctg ctgaacagag tgaacatgtg attcgtcatc tgaaacagga gattga
//
