LOCUS       NC_009652               4259 bp    DNA     circular CON 03-MAR-2024
DEFINITION  Klebsiella pneumoniae subsp. pneumoniae MGH 78578 plasmid pKPN6,
            complete sequence.
ACCESSION   NC_009652
VERSION     NC_009652.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN02603941
            Assembly: GCF_000016305.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae subsp. pneumoniae MGH 78578
  ORGANISM  Klebsiella pneumoniae subsp. pneumoniae MGH 78578
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4259)
  AUTHORS   McClelland,M., Sanderson,E.K., Spieth,J., Clifton,W.S.,
            Latreille,P., Sabo,A., Pepin,K., Bhonagiri,V., Porwollik,S., Ali,J.
            and Wilson,R.K.
  CONSRTM   The Klebsiella pneumonia Genome Sequencing Project
  TITLE     Direct Submission
  JOURNAL   Submitted (06-SEP-2006) Genetics, Genome Sequencing Center, 4444
            Forest Park Parkway, St. Louis, MO 63108, USA
COMMENT     ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 03/03/2024 05:22:42
            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)                     :: 5,589
            CDSs (total)                      :: 5,466
            Genes (coding)                    :: 5,306
            CDSs (with protein)               :: 5,306
            Genes (RNA)                       :: 123
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 160
            CDSs (without protein)            :: 160
            Pseudo Genes (ambiguous residues) :: 0 of 160
            Pseudo Genes (frameshifted)       :: 89 of 160
            Pseudo Genes (incomplete)         :: 78 of 160
            Pseudo Genes (internal stop)      :: 15 of 160
            Pseudo Genes (multiple problems)  :: 19 of 160
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP000651.1.
            Coding sequences below are predicted from manually evaluated
            computer analysis, using similarity information and the program
            GeneMark (version 2.3). This sequence was finished as follows
            unless otherwise noted: all regions were double stranded, sequenced
            with an alternate chemistries or covered by high quality data
            (i.e., phred quality >=30);an attempt was made to resolve all
            sequencing problems, such as compressions and repeats; all regions
            were covered by sequence from more than one m13 subclone.
            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..4259
                     /organism="Klebsiella pneumoniae subsp. pneumoniae MGH
                     78578"
                     /mol_type="genomic DNA"
                     /strain="ATCC 700721; MGH 78578"
                     /sub_species="pneumoniae"
                     /db_xref="ATCC:700721"
                     /db_xref="taxon:272620"
                     /plasmid="pKPN6"
     gene            167..358
                     /locus_tag="KPN_RS28295"
                     /old_locus_tag="KPN_pKPN6p09258"
     CDS             167..358
                     /locus_tag="KPN_RS28295"
                     /old_locus_tag="KPN_pKPN6p09258"
                     /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_000166328.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            358..759
                     /locus_tag="KPN_RS28300"
                     /old_locus_tag="KPN_pKPN6p09259"
     CDS             358..759
                     /locus_tag="KPN_RS28300"
                     /old_locus_tag="KPN_pKPN6p09259"
                     /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_009310048.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            1622..3046
                     /locus_tag="KPN_RS28305"
                     /old_locus_tag="KPN_pKPN6p09261"
     CDS             1622..3046
                     /locus_tag="KPN_RS28305"
                     /old_locus_tag="KPN_pKPN6p09261"
                     /inference="COORDINATES: protein motif:HMM:NF024573.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="AAA family ATPase"
                     /protein_id="WP_011977832.1"
                     /translation="MEIEFENIGFIKSGKIKTNNITVIFGPNNVGKTYLSYSTYAAISR
                     YNDIFREKIKIPKSVSSNLVLNGTARYDITNVFTDSLVKSVNEEVSSSLPAFFKDSSGM
                     FSKSKISVIDSYIKDRVVNSEVNVNISVSENIILNIQKKKNNTCIDFTVTSSKKNNESG
                     SPVIDLKEKDASNYLNILFNFFFLNEVLDSAANNAFIITSERTGISLFQKEIDGNRSNI
                     VDSYMWSKLSTRKLLSFDDIMSQKVAKFSEPINHNINIIRDFADLKKMKHIMTANGVRR
                     ASKERADVIKTLESLTGGRYSTSDGEAIFTVSCSDGDKVSMPLSLSSASNKALFLLDIY
                     VRYYMSNNSYLIIDEPELNLHPHNQIKMAELLVRLSNCGVKIIITTHSDYIVKEINNRI
                     MASQLKDKSRLTELGYKEADLIFSSEVNGFTIGNDGAISEVEGNRYGVNAFLFDNVIND
                     IENKADLLYTYLEEGL"
                     /name="AAA family ATPase"
     gene            3048..3680
                     /locus_tag="KPN_RS28310"
                     /old_locus_tag="KPN_pKPN6p09262"
     CDS             3048..3680
                     /locus_tag="KPN_RS28310"
                     /old_locus_tag="KPN_pKPN6p09262"
                     /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_011977833.1"
                     /translation="MLERFIDVLNKDVLFDLSATPSPDSSVLVVREDGELSEIKELTIK
                     EIPDDSIAFTLDFSSKKNSKENGALFSQLSPYFDKSNGDGVNKSCDLVLITRDGDKFTV
                     LIFDQKSKKPDIESSFLQLENSRVFVSYVINIISLIYKDNIDEGKIIFKRVIGTTRVVK
                     TGVNAANHEQERSRREKLRALGMNEVSIKRTASIEKGWLDYRGIVSF"
                     /name="hypothetical protein"
     Typing          complement(3902..4251)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="94.35"
                     /coverage="86.0"
                     /evalue="6.09e-151"
ORIGIN
        1 gcggcctttc cttcttcccg tcatgcggct gctcggtttt ctcggcgttt ctacgcatgc
       61 tcctgccgct cgccgcagcc gaacggcagg agcgtagcga ctgagtgagc gaggaagcgg
      121 aaaagagaac atccttacac tgagcactga cgctctgagg cctcttatga cgaaacaaca
      181 gaaaacagcg ctgaacatgg ctaaattcat ccagaatcag tctctgctcc tgctggagaa
      241 gcttaacgag cttgatcttg atgctgaggc tgacctttgt gagaaactcc acgatgatgc
      301 ggagcatctt ttccgtacac tgtcctcgag actggatgca ttacaggatg gtaactgatg
      361 gccagagtgt ctattagtga ggctgcccga ctgacgggta agagtagaac aacactgcac
      421 aggttaatta aagcaggtga cctgtccacc tgtagcggtg aacgcaatgc aaaaatggta
      481 gatacttcag agcttttacg tgtctttggt ccctttgagc aaccgaaggg tgaacaccat
      541 tctggacagg tctctgaaca gcgtgataca gcctctgctg accagagtga acaggtgatt
      601 cgtcatctga aacaggagat tgaacacctg aacaccttac ttttgtccaa ggattcgcac
      661 attgacagcc tgaaacaggc catgctcctt cttgaaaatc accaggcaaa attaactgaa
      721 tccccggcgc catggtggaa attctggaaa aaatcctgat cctgccatgc ttgagttttc
      781 ctctccggcc atcccgggga gttcctgaac cttcccaaaa tcgccagatc tctgaacgct
      841 cctcaccact aaaaataccc acacactacg caaaattaaa attttgcgga tttgtattta
      901 atatcagtta gttactttcc tgaaatttcg ttttttaaat tttatttaca tagatccgac
      961 tctatgacga ctcgtcatag agtccccggc gagtcgtcat ggagtcggta acgactcagg
     1021 actataaaaa caatgagtta ataacgaccc gactctagac ccgactcccc gtttggttgt
     1081 tttttagacg tggcgactct gggtacgact ctagtgaaga gtcgccggtg aatcgtgtgg
     1141 tgagtcgtcc ggcgacttgc cacacgccat tgccggctgt cgatgggccc gattcctgaa
     1201 ggtgttgaaa acggtttttc cggctgtgcc ggcaacgcct cacggccacg caataaattg
     1261 cgtccccatt caccgttttc agtcgggttt ggtgcgggtt tcgagtcgtc tggcctaaat
     1321 tcaggctgaa atctgccacc agtcagtctg gtgcataacg attcatgccc gtaaaacgcc
     1381 ctggagcgat tttgaggcgt tttcaggggg taagacgtag gatttaatgg gttacgcccc
     1441 agaatcgttc tgaggccgtt ttagcggtgc gtgtaatgac gcgttatggt aaatccagta
     1501 gttttttgct cattcaggag tggtttttaa atcatcatgt atgaatatct tgtaatggta
     1561 ggtatagtta gcatggatat tgctaaggat aaaagcataa catacttagt gggtgatgcg
     1621 aatggaaata gagtttgaaa atatcggctt tataaaaagc gggaaaataa aaaccaataa
     1681 cattactgtt atttttgggc caaataatgt gggtaaaaca tacctaagtt atagcacata
     1741 cgctgctatt agtaggtaca atgacatatt tagagagaaa ataaaaatac caaaatcagt
     1801 atctagcaac ctggttttaa acggaactgc caggtacgac atcacaaacg tttttactga
     1861 ttctcttgtt aaatcagtta atgaagaggt ttcatcaagc ttacctgcat tcttcaaaga
     1921 tagttcaggt atgttttcta aatcaaaaat tagtgtgatt gactcttata ttaaagatag
     1981 agttgttaat tctgaagtta atgtaaatat ttctgtcagt gaaaatataa tattaaatat
     2041 acaaaagaaa aaaaacaata catgtattga ttttacagtc acctcatcca aaaagaataa
     2101 tgagtcaggg agtcctgtca ttgatctgaa ggaaaaagac gcttcaaatt atttaaatat
     2161 tttatttaat ttctttttcc ttaatgaggt tttagactct gcagctaata acgcatttat
     2221 aataacatct gagcgtactg gaatatcctt gtttcaaaag gagattgatg gtaatcgtag
     2281 taatattgtt gattcttaca tgtggagtaa gttgtctacg aggaagttac tgtcttttga
     2341 tgacattatg agccagaaag ttgctaaatt ctcggagcca attaatcaca atataaatat
     2401 aataagagac tttgctgatc tgaaaaaaat gaagcatata atgacggcaa atggtgttag
     2461 aagggcatct aaggagcgag ctgatgttat aaaaacacta gagtcactta ctggtggcag
     2521 atactcaaca tctgacggtg aggctatttt tacagtttct tgcagtgatg gagataaagt
     2581 gtcaatgcca ctttctctct catcagcatc taacaaagca ctatttctat tagatatata
     2641 tgtaagatac tacatgtcta ataactctta cttgataatt gatgagccag agctgaatct
     2701 gcatccacat aatcaaatta aaatggcaga gttgcttgta agactttcaa attgcggagt
     2761 taaaattata atcacaacgc atagtgatta tatcgttaaa gagattaata atagaataat
     2821 ggcttcgcag ctgaaagata aatcacgatt aactgaactt ggatacaaag aagcagattt
     2881 gattttttcg tcagaggtta atggttttac tatcggtaat gatggtgcca tctctgaggt
     2941 tgaagggaat aggtatgggg tgaatgcttt tctttttgat aatgttatta atgatataga
     3001 aaacaaggct gatctcttgt atacatattt agaagagggg ctctaatatg ctggagaggt
     3061 ttattgatgt tttaaataaa gatgttttgt ttgatttgtc ggcaactcca tctcctgact
     3121 cttcggtgtt agttgttcgt gaagatggtg agcttagtga aataaaagag ttaactataa
     3181 aagaaatacc tgatgattcg attgctttca ctttggattt ttcaagcaag aaaaactcta
     3241 aagaaaatgg cgctttattt tctcaattgt cgccatactt tgacaagtct aatggcgatg
     3301 gggtgaataa atcttgtgat cttgtattga ttacaagaga tggcgataag ttcactgttc
     3361 ttatttttga ccaaaagtca aaaaaacctg atatagaatc atcatttttg cagttggaaa
     3421 actcaagagt ttttgtttcc tatgtaatta atattatttc tttaatttat aaagacaata
     3481 ttgatgaggg gaagattatt tttaaacgag ttattgggac tacaagggtt gtaaaaactg
     3541 gagttaatgc tgctaatcat gagcaggaac gatcgagaag agagaagctt cgtgctcttg
     3601 gcatgaatga agtctcgata aagcgtacgg catcaataga aaagggatgg ttggactatc
     3661 gaggaatcgt ttccttttag tctacttcca gtagtctcaa gtgcttgtgt tgagagagga
     3721 agaacggtat ctttcaacat ataaagaaaa accaccgcta ccaacggtgg ttttcttaag
     3781 gtttatggag ctaccaactc attaaaccta ggtagctggc ttggaggagc acagtcacca
     3841 aaacttgttc tttcagttta gccttaacag gcgtctaact tcaagactat ctcctctaaa
     3901 tcagttacca gtggctgctg ccagtggcgc ttttgcatgt cttaccgggt tggactcaag
     3961 acgatagtta ccggataagg cgcagcggtc ggactgaacg gggggttcgt gcatacagtc
     4021 cagcttggag cgaactgcct tcccggaacc gagtgtcagg cgtggaatga gaaaccgcgg
     4081 ccataacagc ggaatgacac cggtaaaccg aatggcagga acaggagagc gcacgaggga
     4141 gccacctatc agaaatgata ggtatcttta tagtcctgtc gggtttcgcc accactgatt
     4201 tgagcgtctt tctgtgatgc ttgtcagggg ggcggagcct atggaaaaac gacggccgt
//
