LOCUS       NC_009653               3478 bp    DNA     circular CON 03-MAR-2024
DEFINITION  Klebsiella pneumoniae subsp. pneumoniae MGH 78578 plasmid pKPN7,
            complete sequence.
ACCESSION   NC_009653
VERSION     NC_009653.1
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 3478)
  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
            CP000652.1.
            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..3478
                     /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="pKPN7"
     gene            complement(564..1241)
                     /locus_tag="KPN_RS28315"
                     /old_locus_tag="KPN_pKPN7p10262"
     CDS             complement(564..1241)
                     /locus_tag="KPN_RS28315"
                     /old_locus_tag="KPN_pKPN7p10262"
                     /inference="COORDINATES: protein motif:HMM:NF025107.4"
                     /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_117058735.1"
                     /translation="MIYKEKKINRNQIPAILASRWGYSILEEAGWTTVPNLLLEKQMVL
                     ELSNTEMLLLIHLISFIHFADTPAFPSISTLAGRINQHPRTVQRTINKLISKGVLKRKI
                     RAKSVNDKGLSNLYSFEPLIEKLLISISNNKDQYEELQKEQGERDLKTVDQLVRIAAAG
                     GGLRLSASTKTVDQLVRIAAAAGNSITPNKAKLVLFDLESKTVDELVRIAAAGKGCVLF
                     ELE"
                     /name="helix-turn-helix domain-containing protein"
     gene            1433..1663
                     /locus_tag="KPN_RS28320"
                     /old_locus_tag="KPN_pKPN7p10263"
     CDS             1433..1663
                     /locus_tag="KPN_RS28320"
                     /old_locus_tag="KPN_pKPN7p10263"
                     /inference="COORDINATES: protein motif:HMM:NF015947.4"
                     /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="AbrB/MazE/SpoVT family DNA-binding
                     domain-containing protein"
                     /protein_id="WP_011977835.1"
                     /translation="MTTAIGKWGNGAALRIPQPFMKQLGLSIGDVVNFRVTERDLVITK
                     AGPTLEELLGQCTAENRHHEYLCDSQGKEML"
                     /name="AbrB/MazE/SpoVT family DNA-binding domain-containing
                     protein"
     gene            1660..1998
                     /gene="mazF"
                     /locus_tag="KPN_RS28325"
                     /old_locus_tag="KPN_pKPN7p10264"
     CDS             1660..1998
                     /gene="mazF"
                     /locus_tag="KPN_RS28325"
                     /old_locus_tag="KPN_pKPN7p10264"
                     /EC_number="3.1.27.-"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017449239.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="endoribonuclease MazF"
                     /protein_id="WP_011977836.1"
                     /translation="MTTYCPARGDVILLDFNPQSGHEQAGKRPALVVSDDLFNQVTGFA
                     VVCPITNQIKGYPFEVPVDGTTKTTGVILADQVKSLDWKARAARTVDSVSGETVTTVVD
                     MVSKIIKA"
                     /name="mazF"
     gene            complement(2129..2262)
                     /locus_tag="KPN_RS32540"
                     /pseudo=""
     CDS             complement(2129..2262)
                     /locus_tag="KPN_RS32540"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /name="replication initiation protein"
     gene            2667..2858
                     /locus_tag="KPN_RS28330"
                     /old_locus_tag="KPN_pKPN7p10265"
     CDS             2667..2858
                     /locus_tag="KPN_RS28330"
                     /old_locus_tag="KPN_pKPN7p10265"
                     /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_011977837.1"
                     /translation="MTKQQKTALNMAKFIQHQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            2858..3259
                     /locus_tag="KPN_RS28335"
                     /old_locus_tag="KPN_pKPN7p10266"
     CDS             2858..3259
                     /locus_tag="KPN_RS28335"
                     /old_locus_tag="KPN_pKPN7p10266"
                     /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_011977838.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGSFEQPKGEHLSGQVSEQRDTAFADQNEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     Typing          complement(2162..2619)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.5"
                     /coverage="90.0"
                     /evalue="1.69e-147"
ORIGIN
        1 tacgacttgc cggcgacttg tcatagagtc atcgacaagt cactccagac tatcagtaac
       61 ttatgacgac ttgactctag agttgagtcg ttcatttggt gtttttttga ccttggtgac
      121 tctagagtca agtcacgagt cgaatcgccg gtgaatcgtg tgctaagtcg tccggtgact
      181 tgccatcacg tcattgccgg ctgtcgctga actggattct tgaacgtgct gaaaacgggt
      241 tttccggctg cgccggcaac gcctcacggc cacgcaataa attgcgtccc cgttcaccgt
      301 tttcggatca gaaaaacgcc ggaaacagga cttaccctgg ctgaatggca tgaattcccg
      361 cgctatgcac ttgcatgcat actcatgtat gccgtaaaaa cagcccctgc gcgtttctgg
      421 caggttttcg ggtggtttgt tgcctgtttt gccggtttcc cgtcagaaac gccctgaagc
      481 cgttttagcg gtgcacgtaa tagggcttta tgttaaatta agactggttt gatgtttaaa
      541 cttatagtga tctttttagt gtgttactcc aattcgaata gtacacaccc ctttcctgct
      601 gcagcaattc gaactagctc atcaacagtc ttggactcaa gatcaaacag aactaacttt
      661 gctttattgg gggttatcga gttacctgcg gctgcggcaa tccgcacgag ctgatccact
      721 gtttttgtgg atgcacttaa acgtaaacca cctcctgctg cagcaatccg aactaattga
      781 tctactgttt tcaagtctct ttctccttgt tctttctgaa gttcttcata ctggtctttg
      841 ttgttactaa ttgatattaa tagcttttct atcaaaggtt caaagctgta aagattgctc
      901 aagcctttgt cattgactga ttttgcgcgg atttttctct tcaagacccc tttagatatt
      961 aatttgttta tggttcgctg cacggttctt gggtgttggt tgatcctacc tgctagtgta
     1021 gaaatgcttg ggaatgctgg ggtgtctgca aagtgaatga aagagattag atgaatgagt
     1081 aacagcattt cggtgttact caattctaga accatctgtt tttcaagcaa taaattagga
     1141 acagttgtcc accctgcttc ctctaggatg ctatatcccc acctgcttgc taagatcgct
     1201 ggtatttggt tgcggtttat ttttttttct ttgtaaatca atttgttatc gccacttagt
     1261 taaaaaaaat ttttttttgc cattggtaac tacttaaaca aataagtatt tatttgttta
     1321 agtagttacc cctttttagg gtggcattgg tgccaccctt caaactgaac tcaaagacta
     1381 tacaatacaa atattgttta cacattgttt atccatctgc tttggaggta ttatgactac
     1441 ggctattggt aaatggggta atggcgctgc tttgcgtatc ccgcagccgt tcatgaagca
     1501 gcttgggctt agtatcggtg atgttgttaa tttccgcgtc actgaaaggg atttagtaat
     1561 tactaaagct ggcccgacgc ttgaagaact gctcggacag tgcactgcag aaaatcgcca
     1621 tcacgagtat ctatgtgact ctcaaggtaa ggagatgctg tgacgacata ttgtccagcc
     1681 agaggcgatg tcattctttt agattttaac cctcaatcag ggcatgagca ggcagggaaa
     1741 aggcctgctc ttgtcgtttc tgatgatttg tttaaccaag tcactgggtt tgctgttgtt
     1801 tgccccataa ctaatcagat aaaagggtac ccttttgaag ttcctgttga tgggactact
     1861 aaaacaacag gggttatctt ggctgatcaa gtgaagtctt tagactggaa ggccagagcg
     1921 gcacgtactg ttgatagcgt ttccggcgag acagtaacta cagttgttga tatggtttca
     1981 aaaattatta aagcataaaa aaagaccggc ataagccggt cttttcaggc cgaaaatgtt
     2041 accagcattt tcggccttcg gtgactgctc taaaggggaa cagtaaccaa tattgtttat
     2101 caagtgtaac tgcttactgt tacagcaatc aagattttct ttcccccgta gagcgaccga
     2161 tggctactgc caatggcgct ttggcgtgct tgttcgggtt ggactcaagt tgatagttac
     2221 cgaattagcg cagtagtcgg actgaacggg gggttcgtgc atacagtcca gcttggagcg
     2281 aactgcctaa ccggaactga gtgtcaggcg tggaatgaga taaacgcggc cataacagcg
     2341 gaatgacacc ggtaaaccga aaggcgggaa caggagagcg cacgagggag ccatcagggg
     2401 gaaacgcctg gtatctttat agtcctgtcg ggtttcgcca ccactgattt gagcgtcaaa
     2461 ttttgtgatg cttgtcaggg gggcggagcc tatggaaaaa cggccgttgt gcggccttgt
     2521 ctctcttcgt gctgtctgtc ctatgccgtt atgtgtgcgt tgcgaccgct cgccgcagcc
     2581 gaacggcagg agcgtagcga ctgagtgagc gaggaagcgg aaaagagact ggttttacac
     2641 tgagcactga cgctctgagg cttcttatga cgaaacaaca gaaaacagcg ctgaacatgg
     2701 ctaaattcat ccagcatcag tctctgctcc tgctggagaa gcttaacgag cttgatcttg
     2761 atgctgaggc cgacctttgt gagaaactcc atgatgatgc ggagcatctt ttccgtacac
     2821 tgtcctcgag actggatgca ttacaggatg gtaactgatg gccagagtgt ctattagtga
     2881 ggcagcccga ttgacgggta agagtagaac aacactgcac aggttaatta aagcaggtga
     2941 cctgtccacc tgtagcggtg aacgtaatgc aaaaatggta gatacgtcag agcttttgcg
     3001 tgtctttggt tcctttgagc aacctaaggg tgaacatctt tctggacagg tctctgaaca
     3061 gcgtgataca gcctttgctg accagaatga acaggttatt cgtcatctga aacaggaaat
     3121 tgaacacctg aacaccttac ttttgtccaa ggattcgcac attgacagcc tgaaacaggc
     3181 catgctcctt cttgaaaatc accaggcaaa attaactgaa tccccggcgc catggtggaa
     3241 attctggaaa aagtcctgac accgtcatgc ttcagttttc ctctccggcc attccgggga
     3301 gttcctgaac cttcccaaaa atcgtcagat ctctgaacgc acctcaccac ttaaaatacc
     3361 cacacaccac gcaaaattaa aattttgcag ataactcatt aatatcagtt tgttaggtgt
     3421 tattaaatta cgaattatta ccttctgtaa ggtaaatcca agtcgccggc aagtcgta
//
