LOCUS       NZ_CP041098             5191 bp    DNA     circular CON 08-JAN-2024
DEFINITION  Klebsiella pneumoniae subsp. pneumoniae strain KPCTRSRTH01 plasmid
            unnamed6, complete sequence.
ACCESSION   NZ_CP041098
VERSION     NZ_CP041098.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN07450608
            Assembly: GCF_002251875.2
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae subsp. pneumoniae
  ORGANISM  Klebsiella pneumoniae subsp. pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5191)
  AUTHORS   Fouts,D., Sutton,G., Nguyen,K., White,R., D'Souza,R. and
            Thamlikitkul,V.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-JUN-2019) Bioinformatics, JCVI, 9605 Medical Center
            Drive, Suite 150, Rockville, MD 20850, USA
REFERENCE   2  (bases 1 to 5191)
  AUTHORS   Fouts,D., Sutton,G., Nguyen,K., White,R., D'Souza,R. and
            Thamlikitkul,V.
  TITLE     Direct Submission
  JOURNAL   Submitted (06-JUN-2019) Bioinformatics, JCVI, 9605 Medical Center
            Drive, Suite 150, Rockville, MD 20850, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 23-MAY-2019
            Assembly Method                   :: Unicycler v. v0.4.7
            Assembly Name                     :: KPCTRSRTH01
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Reference-guided Assembly         :: NA
            Genome Coverage                   :: 140.66x
            Sequencing Technology :: Illumina NextSeq 500, Oxford Nanopore
            MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/08/2024 05:38:00
            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)                     :: 5,609
            CDSs (total)                      :: 5,494
            Genes (coding)                    :: 5,357
            CDSs (with protein)               :: 5,357
            Genes (RNA)                       :: 115
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 81
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 137
            CDSs (without protein)            :: 137
            Pseudo Genes (ambiguous residues) :: 0 of 137
            Pseudo Genes (frameshifted)       :: 62 of 137
            Pseudo Genes (incomplete)         :: 81 of 137
            Pseudo Genes (internal stop)      :: 32 of 137
            Pseudo Genes (multiple problems)  :: 29 of 137
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP041098.1.
            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..5191
                     /organism="Klebsiella pneumoniae subsp. pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="KPCTRSRTH01"
                     /isolation_source="Rectal swab"
                     /host="Swine"
                     /sub_species="pneumoniae"
                     /db_xref="taxon:72407"
                     /plasmid="unnamed6"
                     /geo_loc_name="Thailand: Nakhon Pathom"
                     /lat_lon="13.8199 N 100.0622 E"
                     /collection_date="2016-08-01"
     gene            12..245
                     /locus_tag="CI667_RS28275"
                     /old_locus_tag="CI667_0028275"
     CDS             12..245
                     /locus_tag="CI667_RS28275"
                     /old_locus_tag="CI667_0028275"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016946053.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_016946053.1"
                     /translation="MTEMEKQLLSALESLQTSYEQQQQAWQDSYSSLQHMFEATSQALT
                     HSDRVCQHLSSQVESLRAQVESLSRNVSRLMR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            407..739
                     /locus_tag="CI667_RS28280"
                     /old_locus_tag="CI667_0028280"
     CDS             407..739
                     /locus_tag="CI667_RS28280"
                     /old_locus_tag="CI667_0028280"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015873600.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_000017531.1"
                     /translation="MSHAIEFIETPMFTRQIKQIATDEELRELQKTLIESPDKGDLIQK
                     TGGLRKIRMATGNQGKSGSVRVIYFLATAEVIYLVMAYPKSTKDSLTDAEKAALKTLTQ
                     QLKDEV"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            741..1025
                     /gene="nadS"
                     /locus_tag="CI667_RS28285"
                     /old_locus_tag="CI667_0028285"
     CDS             741..1025
                     /gene="nadS"
                     /locus_tag="CI667_RS28285"
                     /old_locus_tag="CI667_0028285"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000007431.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NadS family protein"
                     /protein_id="WP_001697687.1"
                     /translation="MSFFDELKASLEEAVEIKNGVREPARVTRYELADVKAIRAQLNVS
                     QSEMAKVLGTSLDTIKSWETGRRNPTGLAAKVLATIQANPKFFQELAAH"
                     /name="nadS"
     gene            1217..2125
                     /locus_tag="CI667_RS28290"
                     /old_locus_tag="CI667_0028290"
     CDS             1217..2125
                     /locus_tag="CI667_RS28290"
                     /old_locus_tag="CI667_0028290"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001697689.1"
                     /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_094487856.1"
                     /translation="MNNAVLELFNDRLPHKPYFSDDLHFGVRIAGKERAILAKYIQFNQ
                     PHAMFWLGFDVDRAGAAIDWSDRNAPAPTLTITNPENGHAHLLYALETSIRTAPDGKMK
                     PLRYAAAVENALRKKLEADAGYSGLICKNPNHGHWKIAVWQPELYTLDWLADSLDLNAA
                     NDKEIVSDYGLGRNCTLFDKTRKWAYRAIRQGWPEFEQWLKACYERASAYNLQFSAPLD
                     EKEIHGIAKSIAKWTFINLTESSFNDFVRVTHTSDVQTLRGIASGKSRRAGSLEEKSPW
                     ISMGISRRKYFYDKKKKLSST"
                     /name="replication initiation protein"
     gene            complement(2111..2935)
                     /locus_tag="CI667_RS28295"
                     /old_locus_tag="CI667_0028295"
     CDS             complement(2111..2935)
                     /locus_tag="CI667_RS28295"
                     /old_locus_tag="CI667_0028295"
                     /inference="COORDINATES: protein motif:HMM:NF012451.4"
                     /GO_process="GO:0006457 - protein folding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="J domain-containing protein"
                     /protein_id="WP_143995108.1"
                     /translation="MRTHYDNLKVSQSASQDEIKLSYRRLCSIHHPDKHPEDKRKRQNE
                     IIKIINLSYSVLSDPKLRAKHDAWILSQSQSQSQSQSQSQSQSQSQSQSQSQSQSQSQN
                     QNQNQNQNQNQNIYNDFDFEKVKDRTISFIKIVIGIILSIIIIIIGSVIDKIPINTEKN
                     KETEATSFERSFNMEAMKSNLPQKIDDITTLTKYYAVGFNVHYVYEVSRSSVEFDFNAI
                     SSRFFGKFKKKEEVCKKNYIYSELLVYNFEYQFLGDNKTFKITKPLSYLCGR"
                     /name="J domain-containing protein"
     gene            3653..3979
                     /locus_tag="CI667_RS28300"
                     /old_locus_tag="CI667_0028300"
     CDS             3653..3979
                     /locus_tag="CI667_RS28300"
                     /old_locus_tag="CI667_0028300"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006674374.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_038999361.1"
                     /translation="MEKRTKEIKIRLTETEHQRLLDRCDRTHLAEWLRQLGLGEHTSRK
                     RRVPDVAPELLRQVSGIGNNLNQIARRLNQTDYLTPSERASLLVVLTSLDRQLGDLLEQ
                     NRDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            4188..>4610
                     /locus_tag="CI667_RS28305"
                     /old_locus_tag="CI667_0028305"
                     /pseudo=""
     CDS             4188..>4610
                     /locus_tag="CI667_RS28305"
                     /old_locus_tag="CI667_0028305"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            4657..>4752
                     /locus_tag="CI667_RS29225"
                     /pseudo=""
     CDS             4657..>4752
                     /locus_tag="CI667_RS29225"
                     /inference="COORDINATES: protein motif:HMM:NF016710.4"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /name="MbeB family mobilization protein"
     gene            4840..5142
                     /locus_tag="CI667_RS29160"
     CDS             4840..5142
                     /locus_tag="CI667_RS29160"
                     /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_039591947.1"
                     /translation="MIRTSVSAAMAWVFLCFALLIGIMGGIIWFQGTIITSRLSEMDSY
                     SQQLANLKAKSGAGVAIYSDDKHRNTYMVVLPKQAHGVETYTSTTDNTVVKYTAK"
                     /name="hypothetical protein"
     Typing          3970..5189
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.069"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tgaccaaaac catgaccgag atggaaaaac agcttctgag cgccttagag agcttacaga
       61 caagctacga gcaacagcag caggcgtggc aggacagcta cagcagcttg cagcacatgt
      121 tcgaggctac ctcacaggcg ctgacgcaca gcgaccgggt gtgtcagcac ttgagcagtc
      181 aggtagagag cttgcgcgcg caggtcgaga gcttgagcag gaacgtcagc cgcttgatgc
      241 gttgatcagg cagcacgacc gcgcctacgc cgagaagctg cgtgagcagc agccagagcc
      301 ggagccgcag aaaaaaacga cccgctacta tggcccctcg atgtgaccgc ttttccgaaa
      361 tcagaattaa gtgtactatg tactccgtta aaaacaggag acagccgtga gtcacgcgat
      421 tgagtttatc gagaccccga tgtttacccg tcagataaaa cagatcgcca cggatgaaga
      481 actcagggag ctgcaaaaga cgctgattga gtcgccggac aaaggcgatc tcattcagaa
      541 aaccggcggg ctgcgcaaaa tcaggatggc gacgggcaac cagggaaaaa gcggcagcgt
      601 gagggtgatt tactttctgg ccaccgccga ggtgatctat ctggtgatgg cctacccgaa
      661 aagcaccaaa gacagcctga cggacgcgga aaaagccgcg ctgaagacgc tgacccaaca
      721 actgaaagac gaggtgtgac atgagttttt ttgacgagct gaaagcatcg ctggaagaag
      781 ccgttgaaat caaaaacggc gtcagagagc ctgcccgcgt cacccgttac gagctggcag
      841 acgtgaaagc catcagggca cagctgaacg tatctcagag cgagatggcg aaagtgctgg
      901 gaaccagcct cgacaccatc aagagctggg aaaccggacg ccgtaacccg accggactgg
      961 cggcgaaggt actggcaacc atccaggcga acccgaaatt cttccaggaa ctggcggcgc
     1021 actaagccgt tgtgacagaa ggattcgaca ggcgaggccg ttcgcgtgta atttaacggc
     1081 aacagaaaaa acaaagcccc ggaaatcatg tcatatcttg gcggatcgca tgataaccag
     1141 ggccaggtcg aaaccttgaa aggatattag cacatgaaac gtgccagaca acagcccgcc
     1201 ataagcgcag ggcgaattga ataacgcagt actcgaactt ttcaacgacc gcttaccgca
     1261 caagccgtac ttttcggacg atctgcactt tggtgtacgc attgccggta aggaacgcgc
     1321 cattctggcg aaatacatcc agttcaatca gcctcacgcc atgttctggc tgggattcga
     1381 cgtcgatcgc gccggtgccg ctattgactg gagcgaccgc aatgcccccg cgccgacact
     1441 gacgatcacc aaccccgaaa acgggcacgc gcacctgctt tacgcgctgg aaacctcgat
     1501 acgcaccgcg ccagacggaa aaatgaagcc attacgctac gcagctgccg tagagaacgc
     1561 gctacgtaaa aaattagagg ctgatgcggg gtattcggga ctaatctgca aaaatccgaa
     1621 ccacggacac tggaaaattg ccgtatggca gccggaactc tacacgctgg actggctggc
     1681 tgactctctc gacctgaacg ccgcgaacga caaagaaatc gtttccgact acggcttagg
     1741 ccgtaactgc actctgttcg ataaaacaag gaaatgggca taccgcgcca tccgtcaggg
     1801 atggcctgag ttcgaacagt ggctgaaagc ctgctacgaa cgtgccagtg cctacaatct
     1861 tcaattctca gcaccactag atgaaaaaga gattcatgga atagctaaaa gtattgccaa
     1921 gtggacattt attaacctaa ccgagtcctc ttttaatgac tttgtgagag tgactcatac
     1981 ttcagatgtg caaacgttga ggggaattgc ctctggtaaa tcaaggcgag ctggctctct
     2041 ggaggaaaaa tccccatgga tatctatggg gattagtagg cgtaaatatt tctatgataa
     2101 aaagaaaaaa ctatcttcca cataagtaag atagaggctt tgttatttta aaggttttat
     2161 tgtcacctag gaactgatat tcaaagttat atactagcaa ttcactatat atataatttt
     2221 ttttgcacac ctcttctttt ttcttgaatt taccaaaaaa tctagaggat atggcgttaa
     2281 agtcgaactc tactgacgat ctactaacct cgtatacata atgaacatta aaacctactg
     2341 cgtagtattt tgttagggtt gttatatcat caattttttg tggaagatta gacttcattg
     2401 cttccatgtt aaaagatctc tcaaaagatg tcgcttctgt ttctttattt ttttctgtat
     2461 tgattgggat tttatcaatc acagacccta ttattattat aattatggat aatatgattc
     2521 ctatcactat cttaataaaa gagattgttc tgtctttgac cttttcaaaa tcaaagtcat
     2581 tataaatatt ctggttctgg ttctggttct ggttctggtt ctggttctgg ctctggctct
     2641 ggctctggct ctgactctga ctctgactct gactctgact ctgactctga ctctgactct
     2701 gactctgact ctgactctga ctcaaaatcc aagcgtcatg ctttgccctt aattttgggt
     2761 cggacaaaac tgagtatgat agatttatta tttttattat ttcattttgt ctttttcttt
     2821 tatcttcagg gtgtttgtca ggatgatgaa tagaacacaa tcgcctataa gaaagtttta
     2881 tttcatcctg actggcgctc tgacttactt tcagattgtc atagtgcgtt ctcatttaat
     2941 acttacttct tatatacgat atcaataaag ctgttaatat ctttgaaagc gcctttgtca
     3001 gtaagaatgt acttatcaga tatacccaaa aataaaacat cccaaggttg ttgttttttt
     3061 gtcttttata aatgtaaaca gggaatatga aataccatcc ccatgatggg caatacgcgt
     3121 tattctctct taaaaaagaa agatctctcc ggaacattac aatggaaaag ataacagcaa
     3181 cgactaatga caggctatct attgattcta ctgtattctg atttatatcc ccgtaattca
     3241 tggagaaata aacaaaagct aaagtgaagt ttaatattac acatatcagt ggtaagaaaa
     3301 ctaacaactt aaagttagag tcattcagat acttgttcat cagtcattaa cgcgccatgt
     3361 gaaaatttat tccaaattat tacatagcta aggttcattt tctcattttt tttgcactcg
     3421 aacctatatc agataacagc cctctccagt agtgggcttt tttttgcagc cggcacgaaa
     3481 tctgacatac tgcattgtac cttaagccag tacacacagc gtcccctcta acgaggtgcc
     3541 accgtgactg gttcaggggg ctcgccgccc cccgaaaccc ctggcatcca ctgcgaaaaa
     3601 ttctcacggt ggtgcgaatt ttttctcagc ggagcctatg gaaaagcggc ctatggaaaa
     3661 gcgaacgaaa gagatcaaaa tccggctcac cgaaaccgag catcagcgac tgcttgatcg
     3721 ctgcgaccgg actcaccttg cggagtggct gcgtcagcta ggtctgggtg aacacacctc
     3781 acgcaagcgt cgtgtgcctg acgtggcacc cgaactgctt cgacaggtca gcgggattgg
     3841 caacaacctg aaccagattg cccgccgtct gaaccagact gattacctga cgccttctga
     3901 acgtgcctcg ttgctcgtcg tactgaccag ccttgatcgg cagcttggcg acctgctgga
     3961 gcagaaccgt gatcgttaaa attcattcgc ggggtgcggg ttcgggcagc ggtcctgtgg
     4021 attacctgct gggaaaagac cggcagcgcg aacaggccag cgtactgcgc ggcaatcctg
     4081 aacatgtgcg tgagctgatc gacggctgca actttgcccg cgcctacact tccggcgtgc
     4141 tttcattcca ggaacctgac attgcagacg ccgagaaatc gcgcctgatg gacgaatggg
     4201 agcacacgct gctgaccgga ctcgaccgcg accagtacgc ctgcctgtgg gtagagcatc
     4261 gcgacaaggg acggcttgag ctgaattttg tcatcccgaa catcgaattg cagagtggaa
     4321 aacgcctgca accctacttt gaccgcgccg accgtccccg cgtcaacgcc tggcagaccc
     4381 tgaccaacga ccggctgggg ctgcgcgacc cgaatgaccc gacctaccgc cgtccgctga
     4441 cgcaggccag cgatctgccc cgcgacaaac agcaggcggc agagaaaatc accgccggcc
     4501 tgatgaacct gatgcagcag ggcgtgatcc gcagccggca ggacgtggtg acgcagctgg
     4561 aaagctacgg cctgaccgta gcgcgggaaa cgaaaagcag catcagcatt gccgatccgg
     4621 acggcggccg aaatatccgg ctgaaaggaa tgatttatga gcgagatttt aaatttggcg
     4681 aagggcttcg aggagaaatc gaagcagcag gcgcaggata ccgagcagag cgtgaagcgc
     4741 gagttcgcga ggctggagac gtctatcagc gcggaactgc aatcaagctc gcagagcatc
     4801 agcaacgcta tccgcgagca gaacggcagg ctgacgggca tgatcagaac ctccgtttca
     4861 gcggcgatgg cgtgggtatt cctctgcttc gccctgctga tcggcatcat gggggggata
     4921 atctggtttc agggcacgat catcacctcg cgcctgagcg aaatggacag ctacagccag
     4981 cagctggcga acctgaaagc gaaaagcggc gcgggcgtgg cgatctacag cgacgacaag
     5041 caccggaaca cctacatggt ggtgctgccg aagcaggcgc acggcgtgga aacctataca
     5101 tcgacgaccg acaacaccgt agtgaaatac acggcgaaat aaccccgtca gagcgccctg
     5161 aaacgacaca gcgcgttttt aacaccgagg a
//
