LOCUS       CP038006                5596 bp    DNA     circular BCT 26-MAR-2019
DEFINITION  Klebsiella pneumoniae strain SCKP020009 plasmid p2_020009, complete
            sequence.
ACCESSION   CP038006
VERSION     CP038006.1
DBLINK      BioProject: PRJNA353728
            BioSample: SAMN08624603
KEYWORDS    .
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5596)
  AUTHORS   Liu,L., Long,H., Feng,Y. and Zong,Z.
  TITLE     The complete genome of Klebsiella pneumoniae strain SCKP020009
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5596)
  AUTHORS   Liu,L., Lin,J., Tang,G., Yang,B., Feng,Y. and Zong,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (28-FEB-2018) Center of Infectious Diseases, West China
            Hospital, Sichuan University, Guoxuexiang 37, Chengdu, Sichuan
            610041, China
REFERENCE   3  (bases 1 to 5596)
  AUTHORS   Liu,L., Long,H., Feng,Y. and Zong,Z.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-MAR-2019) Center of Infectious Diseases, West China
            Hospital, Sichuan University, Guoxuexiang 37, Chengdu 610041, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology :: Illumina HiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 03/20/2019 03:58:39
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 4.8
            Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA; repeat_region
            Genes (total)                     :: 6,012
            CDSs (total)                      :: 5,890
            Genes (coding)                    :: 5,678
            CDSs (with protein)               :: 5,678
            Genes (RNA)                       :: 122
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 212
            CDSs (without protein)            :: 212
            Pseudo Genes (ambiguous residues) :: 0 of 212
            Pseudo Genes (frameshifted)       :: 78 of 212
            Pseudo Genes (incomplete)         :: 139 of 212
            Pseudo Genes (internal stop)      :: 35 of 212
            Pseudo Genes (multiple problems)  :: 34 of 212
            ##Genome-Annotation-Data-END##
            Annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (released 2013). Information about the Pipeline can be
            found here: https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
FEATURES             Location/Qualifiers
     source          1..5596
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="SCKP020009"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p2_020009"
                     /geo_loc_name="China: Bazhong, Sichuan"
                     /collection_date="2016-09-30"
     gene            complement(join(4447..5596,1..386))
                     /locus_tag="C6L86_30025"
     CDS             complement(join(4447..5596,1..386))
                     /locus_tag="C6L86_30025"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012000840.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="nuclease"
                     /protein_id="QBQ33817.1"
                     /translation="MIVKFHPRGRGGGAGPVDYLLGKDRQRDGAIVLQGKPEEVRELID
                     ASPYAKKYTSGVLSFAEQDLPPGQREKLMASFERVLMPGLDKDQYSVLWVEHRDKGRLE
                     LNFLVPNTELLTGRRLQPYYDRADRPRIDAWQTVVNGRLGLHDPNAPENRRALVTPSSL
                     PKTKQEAAEVITRGLLALASSGELKTRQDVTEALESAGFEVVRTTKSSISIADPDGGRN
                     IRLKGAIYEQSFNAGEGLRAEIESAAAEYRRNAESRIQRAREVCQSGTERKREENQRRH
                     PRPRAGYERGHAVEPPERDAYGRADMADHHDGVRTAVRQPERGVVVSGELDSVKSGRNR
                     PAERSAVEAEREDLGRDVPGRQQRTFSGAAEGDGRRQDAELDGRERAVEAERAETGEGV
                     SADDRAGKTVAERIRAATAGLLEKAGRVGERLRGMAENVRAYATGERGAERARDALESA
                     GGTLERATAAFEPVVQRHEMAVAAERAHEQRQHEKELTEARSRQRSYDGPSLG"
                     /name="nuclease"
     gene            complement(376..720)
                     /locus_tag="C6L86_30030"
     CDS             complement(376..720)
                     /locus_tag="C6L86_30030"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006122514.1"
                     /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="QBQ33818.1"
                     /translation="MAVKRTRFLGIRVTDGEYQQLLERCNGRQLAVWMRETCLDTRPAR
                     SLRLPSIDPVLLRQLAGMGNNLNQIARKINGGQWSGADRVQVVAALMAIDAELERLRHA
                     VLEKGADDDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            complement(1071..1301)
                     /locus_tag="C6L86_30035"
                     /pseudo=""
     CDS             complement(1071..1301)
                     /locus_tag="C6L86_30035"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001347451.1"
                     /note="frameshifted; internal stop; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     gene            1989..2368
                     /locus_tag="C6L86_30040"
                     /pseudo=""
     CDS             1989..2368
                     /locus_tag="C6L86_30040"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004198370.1"
                     /note="frameshifted; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /name="hypothetical protein"
     gene            2394..2939
                     /locus_tag="C6L86_30045"
     CDS             2394..2939
                     /locus_tag="C6L86_30045"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004197758.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QBQ33819.1"
                     /translation="MFFKRYLTEKEIYKAALPIVRLQGRVNTSLRFLSKYSDVNKNGLI
                     ALHLNLLHFISYNIHGVESLKITQAGINKAVQQSPHADEIKNIAQAIGRKGPEYIEGLI
                     RNPWGKKNDNPLIFIMSIEESIKETLNSGYMLYRVAPITEGEAAAFMDVLKQLLLFEDN
                     FRLFGRDLVYKIEKLKIR"
                     /name="hypothetical protein"
     gene            3005..3355
                     /locus_tag="C6L86_30050"
     CDS             3005..3355
                     /locus_tag="C6L86_30050"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004197756.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="QBQ33820.1"
                     /translation="MYWLIAFLAFIFPGRSFADGYTAYYRCNGTQEASLTVKDNKLSMV
                     VGLSKFNRQLDTYRFKEKGIEVVMQRAASDDNSEAIMSFIMPDVNNMTLLVKNNGYIIV
                     KTTCWLTKTDKQ"
                     /name="hypothetical protein"
     gene            complement(3425..3691)
                     /locus_tag="C6L86_30055"
     CDS             complement(3425..3691)
                     /locus_tag="C6L86_30055"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000262326.1"
                     /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="QBQ33821.1"
                     /translation="MVWTINYSDRALKSLRKMDKQNARRIVDFMSLRIAVAADPRQSGK
                     PLKGELGEFWRYRVGDYRVLCEIRDDELVILAATIGHRREVYD"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            complement(3675..3899)
                     /locus_tag="C6L86_30060"
     CDS             complement(3675..3899)
                     /locus_tag="C6L86_30060"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000879771.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="TraY domain-containing protein"
                     /protein_id="QBQ33822.1"
                     /translation="MLAIRLSDEIESRLDSLAKQTGRTKTFYAREAILAHLEDLEDYYL
                     SAETAARVRRGDEAVHSSEDVRKSLGLDD"
                     /name="TraY domain-containing protein"
     Typing          complement(973..1049)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="91.25"
                     /coverage="98.0"
                     /evalue="1.04e-21"
     Typing          1238..1635
                     /name="rep_cluster_2370"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.526"
                     /coverage="91.0"
                     /evalue="3.03e-139"
     Typing          complement(4..386)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="99.0"
                     /evalue="3.78e-76"
     Typing          complement(4451..5595)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.476"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 cggtctgccc ggtcgtagta cggctggaga cgcctgccgg tcagcagttc cgtgttcggt
       61 accagaaaat tcagttccag ccgccccttg tcccggtgtt caacccacag cacgctgtac
      121 tggtctttat cgagtccggg catcagaacc cgctcgaagc tcgccatcag cttttcacgc
      181 tggccgggcg gtaaatcctg ttcagcaaaa gacaggacgc cggaggtgta ctttttggcg
      241 tagggcgagg cgtcgataag ctcccggacc tcctccggct ttccctgcag gacgatggcc
      301 ccgtcgcgct ggcggtcttt ccccagcaga taatccaccg gcccggcacc gccgcctcgc
      361 cctcgcggat gaaacttaac gatcatcgtc tgcccccttt tccagcacgg catgccgcag
      421 ccgctcgagt tcggcatcaa tggccatcag cgcggccacc acctgaaccc ggtcagcgcc
      481 tgaccactgg ccgccgttaa ttttccgggc gatctggttg aggttgttcc ccatcccggc
      541 aagctggcgc agcaaaaccg gatcgatgga cggcagccgc aacgaccgcg ccgggcgcgt
      601 atcgagacag gtttcccgca tccacaccgc cagttgcctt ccattgcagc gctccagcag
      661 ctgctggtac tccccatcgg tcacccggat acctaaaaaa cgggtacgct taaccgccat
      721 cctctcctcc gatatccgca aaatgtgacc gggctgaacg ctcaagctct gccatctgct
      781 cccggcggta atcttcctcc tgtgcctgac gcatcagatt tgccatcact gccggatgcc
      841 aggatctttt ttttacgacg agcggcttct tcttcggctt ctgcattatc cctccttcgc
      901 aaacgccgga cggcacggaa aagttttccg ggtcgctccg gcgttggaca agcgccagcg
      961 cgtcagtggt gttagcgggt ttcggggcgc agccctgaac cagtcacagc gtttacgctg
     1021 tgtatactgg cttactatgt tggcatgaga gcacgattca tgaaagtgcc tcatgtggca
     1081 ggtgtgatat gtggctcagg agcgtccgca ataccatgca cggacagatg aaatgacgcc
     1141 tcctcgctca ctcggtagct gcgctcctgc cgttcggctg cggcgggcgt gaccgactca
     1201 cggataacgg gataaagcaa aggcgctcaa atcagaaagg gccggagaaa aggatgcggc
     1261 gttgccgttt ttccataggc tccgcctccc ctgacgagca tcacagaaat ggacgctcaa
     1321 gtcagaggag gacgaaaccc gacaggactt aaagatgccg gtgatttctc tccggcggct
     1381 ccctcgtgcg ctctcctgtt ccgaccctgc cgtttaccgg atacctgttc cgcctttttc
     1441 cctttcggga agcgtggcgc tttctcatag ctcacgctgc tggtatctcg gctcggttta
     1501 ggtcgttcgc tccaagctgg gctgtatgca cgaacccccc gttcagcccg actgctgcgc
     1561 cctttccggt aactatcatc ttgagtccaa cccggacgga cacgcaaaaa cgccactggc
     1621 agcagccatt ggtaactgga tatatacgag agagatattg agaggtcttg aagtgggtgc
     1681 ctaactgcgg ctacactgaa agaacagttt tggtatctgc ggtctcgtat acccagttac
     1741 ccggttaagc agttccccaa ctgacttaac cttcgatcaa accgcctccc caggcggttt
     1801 tttcgtttac agtgcaagag attacgcgca gaaaaaaagg atctcaagaa gatcctttaa
     1861 atgatcgtca gttctgttat ccccggagct ccatccatcc cacggaaaaa cacccgccac
     1921 tgatgccctc agcgcactgc acatcatgta caaaccactc cctccctcct tttttattgc
     1981 gtttcttaat gcgcaatggt agctttgtgc gcaacaaaaa acgcaatagc aagggggggt
     2041 aatgagagaa agaacaaata tcatgctaga tataggatta aagcaatcct tacaacggct
     2101 ttcgaataaa accaaaatga gtctaagtga tcttattaac cagagattat caggttcact
     2161 ttcagttgaa gaacgcattg gcgaaaagcc tgaatggatg agaaaccttg atccctatct
     2221 cgccaatcac ttttcaaata ttgagttacc gctcccttca ccattaaaag aataccaaga
     2281 aaaaatggat gagatagatt caattattaa tgacatgatg gttctaaagg aatatttcag
     2341 agctaagttt tacgacgaaa taaaataggc acgctatacg gaggcggaga attatgtttt
     2401 ttaaacggta tttaacggag aaggaaatat acaaggcagc actcccaatt gttaggcttc
     2461 aagggagagt taacacttca ttacgttttt tatccaaata ctcagatgta aacaaaaatg
     2521 gattaattgc attgcatctt aatttattac attttatctc atacaacata cacggtgtag
     2581 agtctctgaa aatcactcaa gcaggcataa acaaagctgt acaacaaagc cctcacgcag
     2641 atgaaataaa aaatattgcg caggcaatag gacgcaaagg acctgagtac atcgaaggat
     2701 taattagaaa cccatggggg aagaaaaatg ataatccact aatatttata atgagcattg
     2761 aagaaagtat aaaagaaacc cttaactcag gttatatgtt atatagagta gctcccataa
     2821 ctgagggtga agcagctgct ttcatggatg ttcttaaaca attattatta tttgaggata
     2881 attttcgcct ttttggtaga gacttggttt ataaaataga aaaattaaaa atcagataac
     2941 aaagtatggt gaacgaaaaa tgaaagagag gatagtgaaa tgtgtaatac caagattctc
     3001 aactatgtat tggttaattg cgttcctagc atttatattc cccggtcgat cttttgctga
     3061 cggttacacc gcttactacc gatgtaatgg tactcaggaa gcatctctta ctgttaaaga
     3121 taacaaacta agtatggttg taggtctttc taagtttaat aggcaactgg atacttatag
     3181 attcaaagaa aagggaatcg aagtagtaat gcagagagct gcttctgatg ataactctga
     3241 ggccataatg tcttttatta tgcctgacgt taacaatatg accttattag ttaaaaataa
     3301 cggctacatt atcgttaaga caacctgctg gttaactaaa accgacaaac agtagaacac
     3361 gtagttagtc gagtatttac cataatacct gttgtcggca tcaaaaaagc ccgcatagcg
     3421 ggcttcagtc gtaaacttcg cggcgatgtc caatcgtggc ggcaaggata acaagctcgt
     3481 catctcggat ctcacacaga acgcgataat ctcccacccg atagcgccag aactcgccca
     3541 gctcaccttt gagcggcttc cctgactggc gaggatcggc agcaactgca atgcgtaaac
     3601 tcataaaatc cacaatccgt cgtgcgttct gtttgtccat cttgcgtaac gatttgagcg
     3661 cccgatcgga atagttaatc gtccagacca agtgacttcc tcacgtcttc agacgaatgc
     3721 actgcttcat caccacggcg aacgcgtgca gcagtttctg ctgaaagata ataatcctcc
     3781 aggtcttcca gatgcgccag tattgcttcc cgcgcataaa acgtctttgt tctgccggtt
     3841 tgcttcgcca gcgagtccag acgggactca atctcatcag ataaccggat agcaagcata
     3901 taaacctccc gaacaccatt tgctatacat gtatatcaac agtaccacaa tcaacctaaa
     3961 agaacaaaaa ataatcttgt tagcccctct tgataatccg taacgcggtc aatatatcta
     4021 gcttgagggc tttcctctta actattgaaa ggataacgat tatgggtctt aagccgggtc
     4081 cgaaacgaat tgccgattca acaggggaac ctgataaacg ccagcgtgac aataaaaaaa
     4141 cgccgggaaa tactgacaaa ttgaaaccca gcaaatcttc aaaaaaataa gtcagtagtt
     4201 aaaagccctc cggggctttt ttgtatctgc cgttcacgct gattaaacat aacacccgtt
     4261 gcccgcaccg ccccggacgg gttcgccgcg aacggggtgg cagtcaggta aaaccggcaa
     4321 caaaccaccc gataaaccgc cccgttcgcg acagataaat tttacctggc tgcatagcca
     4381 tgcagccagg tgaatgacat ccggtttcag cgtaaatgcc cgatgagaac cctgttttcc
     4441 tgcatttcag cccagcgacg gaccgtcata gcttcgctgc cgggaacgcg cttccgtcag
     4501 ttccttttcg tgctgccgtt gctcgtgcgc ccgttctgcg gccacggcca tctcatgacg
     4561 ctgcactacc ggctcaaacg ctgcagttgc ccgctcaagc gttccacctg ctgactcaag
     4621 cgcgtcacgc gctcgctcag cgccgcgttc tcccgttgca taagccctga cattttccgc
     4681 cattccccga aggcgctctc ccactcgtcc agccttttcg agtagtcctg ctgtagctgc
     4741 tctaatgcgc tcagcaactg tttttccagc tcggtcatcg gcacttactc cttcaccagt
     4801 ctcagcgcgt tctgcttcga ccgcccgttc ccgaccgtcc agctctgcgt cctgtctacg
     4861 gccgtcccct tcggcagcac cagaaaacgt ccgttgctgt cttccaggta cgtcacgccc
     4921 caggtcttcg cgttcagctt cgacagcgct gcgttctgcc ggtcgatttc ggccagattt
     4981 gacgctatca agctcccctg ataccacaac accccgctca ggctggcgaa cagcagtcct
     5041 gacaccatcg tgatggtcag ccatgtccgc ccgaccatac gcatcacgct caggcggttc
     5101 gactgcatgg ccgcgctcat accctgctcg tgggcgcgga tggcggcgct gattctcttc
     5161 ccgctttcgc tcagttccgc tctgacagac ttctcgtgct cgctgaatgc ggctttcagc
     5221 atttcgccgg tactctgctg ctgcgctttc gatttctgct ctaagtcctt cgccagcgtt
     5281 aaaagactgt tcatagatgg ctcccttaag tcggatgttt cgccctccgt ccgggtcggc
     5341 aatgctgatg ctgctctttg tggtgcgcac gacctcaaaa cctgcgcttt ccagcgcctc
     5401 agtgacgtcc tgacgcgttt taagctcccc tgacgaggcg agggccagta agccccgcgt
     5461 aataacctct gcggcttcct gcttcgtttt gggtaacgaa gatggcgtca ccagcgcgcg
     5521 ccggttctcc ggtgcgttcg ggtcgtgcag ccccagtcgc ccgttcacca cggtctgcca
     5581 cgcatcgatg cgcgga
//
