LOCUS       NZ_CP045663             5733 bp    DNA     circular CON 26-NOV-2023
DEFINITION  Klebsiella pneumoniae strain SMU18037509 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP045663
VERSION     NZ_CP045663.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN13135504
            Assembly: GCF_009556655.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5733)
  AUTHORS   Imai,K.
  TITLE     A Case with Community-Acquired Emphysematous Osteomyelitis Caused by
            Serotype K2 - ST25 Klebsiella pneumoniae, Japan
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5733)
  AUTHORS   Imai,K.
  TITLE     Direct Submission
  JOURNAL   Submitted (28-OCT-2019) Infectious Disease and Infection Control,
            Saitama medical university, 38 Hongo, Saitama 3500495, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 22-OCT-2019
            Assembly Method                   :: SPAdes v. 2019-10-20
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 65.0x
            Sequencing Technology             :: Illumina MiSeq; Oxford Nanopore
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/26/2023 04:07:00
            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)                     :: 5,377
            CDSs (total)                      :: 5,256
            Genes (coding)                    :: 5,128
            CDSs (with protein)               :: 5,128
            Genes (RNA)                       :: 121
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 128
            CDSs (without protein)            :: 128
            Pseudo Genes (ambiguous residues) :: 0 of 128
            Pseudo Genes (frameshifted)       :: 61 of 128
            Pseudo Genes (incomplete)         :: 77 of 128
            Pseudo Genes (internal stop)      :: 20 of 128
            Pseudo Genes (multiple problems)  :: 25 of 128
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP045663.1.
            Bacteria and source DNA available from Saitama medical university,
            department of microbiology.
            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..5733
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="SMU18037509"
                     /isolation_source="blood from patient with
                     community-acquired emphysematous osteomyelitis"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="unnamed2"
                     /geo_loc_name="Japan"
                     /collection_date="2018-03"
     gene            complement(624..1040)
                     /locus_tag="GFJ44_RS26375"
                     /old_locus_tag="GFJ44_27000"
     CDS             complement(624..1040)
                     /locus_tag="GFJ44_RS26375"
                     /old_locus_tag="GFJ44_27000"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001283459.1"
                     /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_060628320.1"
                     /translation="MSDQKNNFNLQKQTLESKWGKEALSMGWSAIPTSLFFLQGALNMT
                     PTTFNVLLHLIIHWWKPYDWPHPSQESIAVRMGVSSRTVQRSLQELENYGLLTKIRTSK
                     DNPKYKGRNIYDMSLLVKSLNILTPDLNAKLNEK"
                     /name="helix-turn-helix domain-containing protein"
     gene            1388..2062
                     /locus_tag="GFJ44_RS26380"
                     /old_locus_tag="GFJ44_27005"
     CDS             1388..2062
                     /locus_tag="GFJ44_RS26380"
                     /old_locus_tag="GFJ44_27005"
                     /inference="COORDINATES: protein motif:HMM:NF014045.3"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NYN domain-containing protein"
                     /protein_id="WP_001259273.1"
                     /translation="MRTIVYVDGFNFYHGLVKRSGYKWLDLYKLFEEQLLPIRARESQL
                     IQVKFFTAEIKAKFATRGELAHQAQQAYHRALLQIYGEKLQIIKGYYSERQECAMTFNE
                     GYPPSKTDRTTVWKLEEKQTDVRMALEMYRDAIRGEAEQLVLCTNDSDMIPPIEMIKAD
                     RPELKIGIVVPREQDTSRVISSLASLGDWSLPYVSYEALRLALLPDKVPTRRKPILKPN
                     HW"
                     /name="NYN domain-containing protein"
     gene            2829..3020
                     /locus_tag="GFJ44_RS26385"
                     /old_locus_tag="GFJ44_27010"
     CDS             2829..3020
                     /locus_tag="GFJ44_RS26385"
                     /old_locus_tag="GFJ44_27010"
                     /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_060628048.1"
                     /translation="MMKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3020..3421
                     /locus_tag="GFJ44_RS26390"
                     /old_locus_tag="GFJ44_27015"
     CDS             3020..3421
                     /locus_tag="GFJ44_RS26390"
                     /old_locus_tag="GFJ44_27015"
                     /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_060628044.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVAEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            4383..5075
                     /locus_tag="GFJ44_RS26395"
                     /old_locus_tag="GFJ44_27020"
     CDS             4383..5075
                     /locus_tag="GFJ44_RS26395"
                     /old_locus_tag="GFJ44_27020"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000550475.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF3800 domain-containing protein"
                     /protein_id="WP_071556240.1"
                     /translation="MHLLYVDESGTPSDPTLNHFVLSGISVFEKQTHWIEQEMNAIAAR
                     FNTDDPYERELHGSPMRGGRDGWKNFPFDDRKQAIKDCLTLLTQKHRDIRIFACVVPKG
                     SLGGKDVITESFYQISSRFDMYLSRLHYQGATSRGVAIFDKSSTEKSIQSLARTFKDTG
                     YGYGKLRNFSEVPLFLDSKASRLIQLADLVSYSIFRKFELNDDEFYKIIEHSFDYNNGK
                     VHGLYVAH"
                     /name="DUF3800 domain-containing protein"
     gene            complement(5268..5576)
                     /locus_tag="GFJ44_RS26400"
                     /old_locus_tag="GFJ44_27025"
     CDS             complement(5268..5576)
                     /locus_tag="GFJ44_RS26400"
                     /old_locus_tag="GFJ44_27025"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012564913.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_060628143.1"
                     /translation="MTEKLKGTASVLHETKTYEELVEKHSVEVANGLLANAINTALPNA
                     GITSNDVAGFSKVTIALRTGEVDLAKTAKEANADAAAVSANIIAGLKASQKSKDEIK"
                     /name="hypothetical protein"
     Typing          complement(2305..2708)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.103"
                     /coverage="99.0"
                     /evalue="4.61e-167"
ORIGIN
        1 ttatctaatt cggcatgcat cgagatactc attgctaggc attcctagtc ctagctttgc
       61 tcacccaatc agccacacta gtgatgttta ctctctttga accccctctt ttttagccag
      121 taattaagtt cgtgttcttg ctttttcgat acgtgctttc ctactgggtg tgacattttc
      181 ccccttacga tggggaaaac ttacgctgac acatggagca ttttagagat ccattcgtac
      241 catctttgaa cagtgtcatt gtcttacaaa atggacattg cttacctctt ccgccccggc
      301 cttcgtttgg tggtgttctc actacagcat tgcaagaagt acagctgttt ccgaagaggg
      361 tcagcttgtt acagaagggg cacttttttc caggcattta aggctttcca ttaaatattc
      421 attttattta atgaatatat tattaagatg ttttgcttgt aaagcactat cttagatcat
      481 ctttcgtggt gattaaattt tgatctaagg tgagtgcaga gtgtgccggc aatcccctgt
      541 tcatcttggc ggagtccgag atacagacct gataaatggt aaacctgcta cgacggtggc
      601 ctgattttaa atgtattttg cggttatttt tcgttcagtt tggcgttaag gtcaggagta
      661 agaatattta gtgacttaac caaaagagac atatcgtaaa tgtttcttcc tttgtactta
      721 gggttgtcct tacttgtacg aatttttgta agcaatccgt agttttcaag ttcttggagt
      781 gagcgttgca ctgttcttga tgaaacaccc attctaactg caatgctctc ctgagaggga
      841 tgtggccaat cgtagggttt ccaccagtgg ataattagat ggagtaagac attgaatgtt
      901 gtgggtgtca tattgagcgc accctgtaag aagaaaagtg atgtaggaat agctgaccag
      961 cccatgctta atgcttcctt tccccattta gattcaagtg tttgtttttg aaggttaaaa
     1021 ttattttttt gatctgacat ataccaacct gctaagctga agtcttctta gaagacttca
     1081 gcttagcagg ttggtaaatt aattcatata attagtacga caccagcgcg cttataatat
     1141 cattatattc aactatactt aatctacact cacctcttgg tagcgcgatt aagttacgcg
     1201 gctcccttga ggctctaaac ctccctttag gtgggcagcg attaagttac gcgtcttcct
     1261 tcaggagctt gaaaccgctc tctcggttag ttttaaccct gaggaactac aacttaaact
     1321 gtttgctaac gttagttttt gttgttaaaa ccgcccttag aggcggtttt tttatgcgtg
     1381 aaataaaatg agaacaatag tttacgtaga tgggttcaat ttttaccatg gattggtcaa
     1441 acgttcggga tataagtggc tggaccttta taagctcttt gaagaacaac tacttccgat
     1501 aagagcaaga gagtcacagt tgattcaggt gaagttcttc actgctgaga tcaaagctaa
     1561 atttgctacc cgaggtgagt tagctcacca ggctcagcaa gcttaccatc gagcattact
     1621 gcagatttat ggcgagaagc tacaaataat caaagggtac tactcagaac gtcaggaatg
     1681 tgcgatgacc ttcaatgagg ggtatcctcc atcgaaaacg gatagaacaa cggtctggaa
     1741 gttagaagaa aagcagactg acgttagaat ggctttagaa atgtatcgcg atgcgattcg
     1801 tggtgaggca gagcagttgg ttctctgtac taacgattcg gatatgatac cgccaataga
     1861 aatgataaaa gccgatcgac ctgaattgaa aattggaatc gtagtaccaa gggagcaaga
     1921 tactagtcga gttattagta gtctggctag tttaggggat tggagcctgc catatgtatc
     1981 ctacgaagct ttgagattag cgctattacc agataaggtt cccactagac ggaaaccaat
     2041 actgaagcca aatcactggt aaacagccgg atcttcttgt gatcctttta ctctcgtcgt
     2101 aatctcatgc cctgcaaaca aaaaaaccac cgctaccaac ggtggttcgt ttgccggaat
     2161 caagagctac caactctttc ttccgaaggt aactggcttt cacggagcgc aggtaccaaa
     2221 actgtccttc cagtgtagcc gcagtcaggc ctccacttca agaactctgt agaacactct
     2281 actactccgc tccgtgaatc ctcttactaa tggctaccgc cactggcgat ttttcgtgtc
     2341 tgttccgggt tggactcaag atgatagtta ccgggacaac gtggtagtcg ggctgaacgg
     2401 ggggttcgtg catacagtcc agcttggagc gaactgccta cccggaactg agtgtcaggc
     2461 gtggaatgag ataaacgcgg ccataacagc ggaatgacac cggtaaaccg aatggcagga
     2521 acaggagagc gcacgaggga gccatcaggg ggaaacgcct gatatcttta tagtcctgtc
     2581 gggtttcgcc accactgatt tgagcgtcag cttctgtgat gcttgtcagg ggggcggagc
     2641 ctatggaaaa acggccgcta agcggccttt ccttttcccc gtcacgcgac cgctcggttt
     2701 tctcgagctt ttacacgcat gctcctgccg ctcgccgcag ccgaacggca ggagcatagc
     2761 gactgagtga gcgaggaagc ggaaaagaga acatccctac actgagcact gacgctctga
     2821 ggcctcttat gatgaaacaa cagaaaacag cgctgaacat ggctaaattc atccagaatc
     2881 agtctctgct cctgctggag aagcttaatg agcttgatct cgatgtcgag gccgaccttt
     2941 gtgagaaact ccacgatgat gcggagcatc ttttccgtac actgtcctca agactggatg
     3001 cattacagga tggtaactga tggccagagt ttctattagt gaggctgccc gactgacggg
     3061 taagagtaga acaacactgc acaggttaat taaagcaggt gacctgtcca cctgtagcgg
     3121 tgaacgcaat gcaaaaatgg tagatacttc agagctttta cgtgtctttg gtccctttga
     3181 acaaccgaag ggtgaacacc attctggaca ggtcgctgaa cagcgtgata cagcctctgc
     3241 tgaccagagt gaacaggtga ttcgtcatct gaaacaggag attgaacacc tgaacacctt
     3301 acttttgtcc aaggattcgc acattgacag cctcaaacag gccatgctcc ttcttgaaaa
     3361 tcaccaggca aaattaactg aatccccggc gccatggtgg aaattctgga aaaaatcctg
     3421 accccgtcat gcttcagttt tcctctccgg ccatcccggg gagttcctga accttcccaa
     3481 aaatcgtcag atctctgaac gcacctcacc actaaaaata cccacacccc acgcaaaatt
     3541 aaaattttga agataactca ttaatatcag ttatttgtgg gttattaaat tacgcagtat
     3601 tactttctgt aaggtgaatc caagtcgtcg gcgattcgtg tacgacttgc cgacgactcg
     3661 tcatagagtc atcgacgact cactccacac tatcagtaac ttatgacgac ttgactctag
     3721 agtcgaatcg tcgctttggc gtttttttga ccgtagtgac tctagagtca agtcacgagt
     3781 cgaatcgccg gtgaatcgtg tggtgagtcg tctggtgact tgccataacg tgattgccgg
     3841 ccgtcgacga acctgattcc tgaacgtgct gaaaaccggt tttccggctg cgccggcaac
     3901 gcttcacggc cacgcaataa attgcgtccc cgttcaccgt tttcggagga gaagaacgcc
     3961 ggaaacagga cttcccctgg ctgaatggtg tcaatttccg cgctatgcac ttgtgcgcat
     4021 actcatgcat gccgtaaaaa cagagcctgt gcgtttctgg cgggttttcg ggtggtttgt
     4081 tgcctgtttt accggttttc cgtcagaaac gctctgaggg cctctcaggc ggtgctgata
     4141 acggatgtta tggtaaataa gagtgacgat gaagcaacta tccgattgaa tttatgttat
     4201 ttaattgctc atgattatga tatgtgtata aattattttg gtaaatatgc gtttgcctgt
     4261 tatgctcaac actgagtcag ttcgctgccc atagcggtgt atgcgatttt tatcgcactg
     4321 gcttgcctaa tttatgaaaa ggccgcgcat ttgcgcggcc tttttcgttt aaggaatctt
     4381 cgatgcatct cttatacgtt gatgagtctg gtacaccatc agaccctaca cttaatcatt
     4441 ttgtcctttc tggtatctca gtgtttgaaa agcagactca ttggatagag caagagatga
     4501 atgctatcgc agccagattt aatactgatg atccgtatga aagagaattg catggttcgc
     4561 ctatgagagg tgggcgagat ggctggaaaa attttccttt cgatgacagg aaacaagcga
     4621 tcaaagattg cctaacactc ctgactcaaa agcatcggga tatccgtata tttgcgtgtg
     4681 ttgtacccaa gggatcctta ggtggaaagg acgtaataac agaatctttt tatcagatat
     4741 cgtctcgttt cgacatgtat ttgagccgat tacattacca aggagcaaca tctcgagggg
     4801 tggccatttt tgataaatcg tcaacagaga aaagtattca gtctcttgct cgtacgttta
     4861 aagatactgg atatggatat ggaaaacttc gtaacttctc tgaagtgcct ttgtttttgg
     4921 attccaaggc gtcaaggttg attcagcttg cggatcttgt atcgtactca attttcagga
     4981 agtttgagct caatgatgat gagttctaca agattattga gcattccttt gactacaata
     5041 atggtaaagt tcacggactt tacgtagctc actaattgaa tcgctgtgga taggttgtct
     5101 ccgggtcaga tgccgctgta gccactatct tccatcgatg cagggcctac gactgaagcc
     5161 tgcattgcat tttctcatta gcatcgcaca acggatgtta tagtgagtac agcccgttat
     5221 ggacataaaa aagccaccat tcaggtggct ttttaccctg ctgataatca ctttatttca
     5281 tccttgctct tttgtgatgc tttcaatccc gcaataatat ttgctgaaac agctgcagca
     5341 tcagcgttcg cttctttcgc tgttttggct agatcaactt ctcctgtgcg caaggctatc
     5401 gtcaccttgc tgaatccggc gacgtcattt gaagttattc ctgcgttagg caaagcagta
     5461 ttgatcgcat ttgccagcaa gccgttagcg acttctactg aatgcttctc aaccaattcc
     5521 tcataagttt tggtttcatg cagaacacta gccgttcctt tcagtttctc ggtcatgtaa
     5581 acctcttgtc tgtgataatt tagatgtggg attttacata ttgttttgat tttaaatgga
     5641 taaatcccac gttatggaat ttatctcaga tgtaacagag atcattttgt ctcaaattcg
     5701 tcaacccata accctttgtt atcttgaaag tat
//
