LOCUS       NZ_CP041378             5596 bp    DNA     circular CON 09-JAN-2024
DEFINITION  Klebsiella pneumoniae strain KP58 plasmid pKP58-5, complete
            sequence.
ACCESSION   NZ_CP041378
VERSION     NZ_CP041378.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN12228410
            Assembly: GCF_008728695.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5596)
  AUTHORS   Ruan,Z. and He,F.
  TITLE     Emergence of a pandrug resistant hypervirulent Klebsiella pneumoniae
            isolate in China
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5596)
  AUTHORS   Ruan,Z. and He,F.
  TITLE     Direct Submission
  JOURNAL   Submitted (07-JUL-2019) Department of Clinical Laboratory, Sir Run
            Run Shaw Hospital, School of Medicine, Zhejiang University, 3
            Qingchun East Road, Hangzhou, Zhejiang 310016, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology :: Oxford Nanopore GridION; Illumina NextSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/09/2024 01:54:47
            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)                     :: 5,965
            CDSs (total)                      :: 5,844
            Genes (coding)                    :: 5,660
            CDSs (with protein)               :: 5,660
            Genes (RNA)                       :: 121
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 184
            CDSs (without protein)            :: 184
            Pseudo Genes (ambiguous residues) :: 0 of 184
            Pseudo Genes (frameshifted)       :: 67 of 184
            Pseudo Genes (incomplete)         :: 122 of 184
            Pseudo Genes (internal stop)      :: 27 of 184
            Pseudo Genes (multiple problems)  :: 32 of 184
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP041378.1.
            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..5596
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="KP58"
                     /isolation_source="urine"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pKP58-5"
                     /geo_loc_name="China: Hangzhou"
                     /collection_date="2018-05-04"
                     /collected_by="Fang He"
     gene            complement(join(5287..5596,1..41))
                     /locus_tag="FM021_RS30120"
                     /old_locus_tag="FM021_30125"
     CDS             complement(join(5287..5596,1..41))
                     /locus_tag="FM021_RS30120"
                     /old_locus_tag="FM021_30125"
                     /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="WP_004197756.1"
                     /translation="MYWLIAFLAFIFPGRSFADGYTAYYRCNGTQEASLTVKDNKLSMV
                     VGLSKFNRQLDTYRFKEKGIEVVMQRAASDDNSEAIMSFIMPDVNNMTLLVKNNGYIIV
                     KTTCWLTKTDKQ"
                     /name="hypothetical protein"
     gene            complement(107..652)
                     /locus_tag="FM021_RS30125"
                     /old_locus_tag="FM021_30130"
     CDS             complement(107..652)
                     /locus_tag="FM021_RS30125"
                     /old_locus_tag="FM021_30130"
                     /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_023317533.1"
                     /translation="MFFKRYLTEKEIYKAALPIVRLQGRVNTSLRFLSKYSDVNKNGLI
                     ALHLNLLHFISYNIHGVESLKITQAGINKAVQQSPHADEIKNIAQAIGRKGPEYIEGLI
                     RNPWGKKNDNPLIFIMSIEESIKETLNSGYMLYRVAPITEGEAAAFMDVLKQLLLFEDN
                     FRLFGRDLVYKIEKLKIR"
                     /name="hypothetical protein"
     gene            complement(678..1004)
                     /locus_tag="FM021_RS30130"
                     /old_locus_tag="FM021_30135"
     CDS             complement(678..1004)
                     /locus_tag="FM021_RS30130"
                     /old_locus_tag="FM021_30135"
                     /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_050516389.1"
                     /translation="MRERTNIMLDIGLKQSLQRLSNKTKMSLSDLINQRLSGSLSVEER
                     IGEKPEWMRNLDPYLANHFSNIELPLPSPLKEYQEKMDEIDSIINDMMVLKEYFRAKFY
                     DEIK"
                     /name="hypothetical protein"
     gene            complement(1362..1520)
                     /locus_tag="FM021_RS31380"
     CDS             complement(1362..1520)
                     /locus_tag="FM021_RS31380"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /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_071596352.1"
                     /translation="MHEPPVQPDCCALSGNYHLESNPDGHAKTPLAAAIGNWIYTREIL
                     RGLEVGA"
                     /name="replication initiation protein"
     gene            2160..2336
                     /locus_tag="FM021_RS30805"
     CDS             2160..2336
                     /locus_tag="FM021_RS30805"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_004197757.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_004197757.1"
                     /translation="MQKPKKKPLVVKKRSWHPAVMANLMRQAQEEDYRREQMAELERSA
                     RSHFADIGGEDGG"
                     /name="hypothetical protein"
     gene            2326..2670
                     /locus_tag="FM021_RS30140"
                     /old_locus_tag="FM021_30145"
     CDS             2326..2670
                     /locus_tag="FM021_RS30140"
                     /old_locus_tag="FM021_30145"
                     /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="WP_062955149.1"
                     /translation="MAVKRTRFLGIRVTDGEYQQLLERCNGRQLAVWMRETCLDTRPAR
                     SLRLPSIDPVLLRQLAGMGNNLNQIARKINGGQWSGADRVQVVAALMAIDAELERLRHA
                     VLEKGADDDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2879..>3313
                     /locus_tag="FM021_RS31220"
                     /pseudo=""
     CDS             2879..>3313
                     /locus_tag="FM021_RS31220"
                     /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            3348..3857
                     /locus_tag="FM021_RS30150"
                     /old_locus_tag="FM021_30155"
     CDS             3348..3857
                     /locus_tag="FM021_RS30150"
                     /old_locus_tag="FM021_30155"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020325392.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_032433972.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQSTGEMLKAAFSEHEKSVRAELSESG
                     KRISAAIRAHEQGMSAAMQSNRLSVMRMVGRTWLTITMVSGLLFASLSGVLWYQGSLIA
                     SNLAEIDRQNAALSKLNAKTWGVTYLEDSNGRFLVLPKGTAVDRTQSWTVGNGRSKQNA
                     LRLVKE"
                     /name="MbeB family mobilization protein"
     gene            3864..4076
                     /locus_tag="FM021_RS30155"
                     /old_locus_tag="FM021_30160"
     CDS             3864..4076
                     /locus_tag="FM021_RS30155"
                     /old_locus_tag="FM021_30160"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137423.1"
                     /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_021527181.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWESAFGEWRKMSGLMQRENA
                     ALSERVTRLSQQVERLSGQLQRLSR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            4743..4967
                     /locus_tag="FM021_RS30160"
                     /old_locus_tag="FM021_30165"
     CDS             4743..4967
                     /locus_tag="FM021_RS30160"
                     /old_locus_tag="FM021_30165"
                     /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="DUF6290 family protein"
                     /protein_id="WP_000879771.1"
                     /translation="MLAIRLSDEIESRLDSLAKQTGRTKTFYAREAILAHLEDLEDYYL
                     SAETAARVRRGDEAVHSSEDVRKSLGLDD"
                     /name="DUF6290 family protein"
     gene            4951..5217
                     /locus_tag="FM021_RS30165"
                     /old_locus_tag="FM021_30170"
     CDS             4951..5217
                     /locus_tag="FM021_RS30165"
                     /old_locus_tag="FM021_30170"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000262326.1"
                     /GO_function="GO:0008657 - DNA topoisomerase type II
                     (double strand cut, ATP-hydrolyzing) inhibitor activity
                     [Evidence IEA]; GO:0042803 - protein homodimerization
                     activity [Evidence IEA]"
                     /GO_process="GO:0030541 - plasmid partitioning [Evidence
                     IEA]; GO:0051290 - protein heterotetramerization [Evidence
                     IEA]"
                     /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_004197762.1"
                     /translation="MVWTINYSDRALKSLRKMDKQNARRIVDFMSLRIAVAADPRQSGK
                     PLKGELGEFWRYRVGDYRVLCEIRDDELVILAATIGHRREVYD"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     Typing          1995..2074
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="90.361"
                     /coverage="97.0"
                     /evalue="1.1100000000000001e-21"
     Typing          complement(1412..1809)
                     /name="rep_cluster_2370"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.526"
                     /coverage="91.0"
                     /evalue="3.03e-139"
     Typing          2661..4192
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.804"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ccggggaata taaatgctag gaacgcaatt aaccaataca tagttgagaa tcttggtatt
       61 acacatttca ctatcctctc tttcattttt cgttcaccat actttgttat ctgattttta
      121 atttttctat tttataaacc aagtctctac caaaaaggcg aaaattatcc tcaaataata
      181 ataattgttt aagaacatcc atgaaagcag ctgcttcacc ctcagttatg ggagctactc
      241 tatataacat ataacctgag ttaagggttt cttttatact ttcttcaatg ctcattataa
      301 atattagtgg attatcattt ttcttccccc atgggtttct aattaatcct tcgatgtact
      361 caggtccttt gcgtcctatt gcctgcgcaa tattttttat ttcatctgcg tgagggcttt
      421 gttgtacagc tttgtttatg cctgcttgag tgattttcag agactctaca ccgtgtatgt
      481 tgtatgagat aaaatgtaat aaattaagat gcaatgcaat taatccattt ttgtttacat
      541 ctgagtattt ggataaaaaa cgtaatgaag tgttaactct cccttgaagc ctaacaattg
      601 ggagtgctgc cttgtatatt tccttctccg ttaaataccg tttaaaaaac ataattctcc
      661 gcctccgtat agcgtgccta ttttatttcg tcgtaaaact tagctctgaa atattccttt
      721 agaaccatca tgtcattaat aattgaatct atctcatcca ttttttcttg gtattctttt
      781 aatggtgaag ggagcggtaa ctcaatattt gaaaagtgat tggcgagata gggatcaagg
      841 tttctcatcc attcaggctt ttcgccaatg cgttcttcaa ctgaaagtga acctgataat
      901 ctctggttaa taagatcact tagactcatt ttggttttat tcgaaagccg ttgtaaggat
      961 tgctttaatc ctatatctag catgatattt gttctttctc tcattacccc cccttgctat
     1021 tgcgtttttt gttgcgcaca aagctaccat tgcgcattaa gaaacgcaat aaaaaaggag
     1081 ggagggagtg gtttgtacat gatgtgcagt gcgctgaggg catcagtggc gggtgttttt
     1141 ccgtgggatg gatggagctc cggggataac agaactgacg atcatttaaa ggatcttctt
     1201 gagatccttt ttttctgcgc gtaatctctt gcactgtaaa cgaaaaaacc gcctggggag
     1261 gcggtttgat cgaaggttaa gtcagttggg gaactgctta accgggtaac tgggtatacg
     1321 agaccgcaga taccaaaact gttctttcag tgtagccgca gttaggcacc cacttcaaga
     1381 cctctcaata tctctctcgt atatatccag ttaccaatgg ctgctgccag tggcgttttt
     1441 gcgtgtccgt ccgggttgga ctcaagatga tagttaccgg aaagggcgca gcagtcgggc
     1501 tgaacggggg gttcgtgcat acagcccagc ttggagcgaa cgacctaaac cgagccgaga
     1561 taccagcagc gtgagctatg agaaagcgcc acgcttcccg aaagggaaaa aggcggaaca
     1621 ggtatccggt aaacggcagg gtcggaacag gagagcgcac gagggagccg ccggagagaa
     1681 atcaccggca tctttaagtc ctgtcgggtt tcgtcctcct ctgacttgag cgtccatttc
     1741 tgtgatgctc gtcaggggag gcggagccta tggaaaaacg gcaacgccgc atccttttct
     1801 ccggcccttt ctgatttgag cgcctttgct ttatcccgtt atccgtgagt cggtcacgcc
     1861 cgccgcagcc gaacggcagg agcgcagcta ccgagtgagc gaggaggcgt catttcatct
     1921 gtccgtgcat ggtattgcgg acgctcctga gccacatatc acacctgcca catgaggcac
     1981 tttcatgaat cgtgctctca tgccaacata gtaagccagt atacacagcg taaacgctgt
     2041 gactggttca gggctgcgcc ccgaaacccg ctaacaccac tgacgcgctg gcgcttgtcc
     2101 aacgccggag cgacccggaa aacttttccg tgccgtccgg cgtttgcgaa ggagggataa
     2161 tgcagaagcc gaagaagaag ccgctcgtcg taaaaaaaag atcctggcat ccggcagtga
     2221 tggcaaatct gatgcgtcag gcacaggagg aagattaccg ccgggagcag atggcagagc
     2281 ttgagcgttc agcccggtca cattttgcgg atatcggagg agaggatggc ggttaagcgt
     2341 acccgttttt taggtatccg ggtgaccgat ggggagtacc agcagctgct ggagcgctgc
     2401 aatggaaggc aactggcggt gtggatgcgg gaaacctgtc tcgatacgcg cccggcgcgg
     2461 tcgttgcggc tgccgtccat cgatccggtt ttgctgcgcc agcttgccgg gatggggaac
     2521 aacctcaacc agatcgcccg gaaaattaac ggcggccagt ggtcaggcgc tgaccgggtt
     2581 caggtggtgg ccgcgctgat ggccattgat gccgaactcg agcggctgcg gcatgccgtg
     2641 ctggaaaagg gggcagacga tgatcgttaa gtttcatccg cgagggcgag gcggcggtgc
     2701 cgggccggtg gattatctgc tggggaaaga ccgccagcgc gacggggcca tcgtcctgca
     2761 gggaaagccg gaggaggtcc gggagcttat cgacgcctcg ccctacgcca aaaagtacac
     2821 ctccggcgtc ctgtcttttg ctgaacagga tttaccgccc ggccagcgtg aaaagctgat
     2881 ggcgagcttc gagcgggttc tgatgcccgg actcgataaa gaccagtaca gcgtgctgtg
     2941 ggttgaacac cgggacaagg ggcggctgga actgaatttt ctggtaccga acacggaact
     3001 gctgaccggc aggcgtctcc agccgtacta cgaccgggca gaccgtccgc gcatcgatgc
     3061 gtggcagacc gtggtgaacg ggcgactggg gctgcacgac ccgaacgcac cggagaaccg
     3121 gcgcgcgctg gtgacgccat cttcgttacc caaaacgaag caggaagccg cagaggctat
     3181 tacgcggggc ttactggccc tcgcctcgtc aggggagctt aaaacgcgtc aggacgtcac
     3241 tgaggcgctg gaaagcgcag gttttgaggt cgtgcgcacc acaaagagca gcatcagcat
     3301 tgccgacccg gacggagggc gaaacatccg acttaaggga gccatctatg aacagtcttt
     3361 taacgctggc gaaggactta gagcagaaat cgaaagcgca gcagcagagt accggcgaaa
     3421 tgctgaaagc cgcattcagc gagcacgaga agtctgtcag agcggaactg agcgaaagcg
     3481 ggaagagaat cagcgccgcc atccgcgccc acgagcaggg tatgagcgcg gccatgcagt
     3541 cgaaccgcct gagcgtgatg cgtatggtcg ggcggacatg gctgaccatc acgatggtgt
     3601 caggactgct gttcgccagc ctgagcgggg tgttgtggta tcaggggagc ttgatagcgt
     3661 caaatctggc cgaaatcgac cggcagaacg cagcgctgtc gaagctgaac gcgaagacct
     3721 ggggcgtgac gtacctggaa gacagcaacg gacgttttct ggtgctgccg aaggggacgg
     3781 ccgtagacag gacgcagagc tggacggtcg ggaacgggcg gtcgaagcag aacgcgctga
     3841 gactggtgaa ggagtaagtg ccgatgaccg agctggaaaa acagttgctg agcgcattag
     3901 agcagctaca gcaggactac tcgaaaaggc tggacgagtg ggagagcgcc ttcggggaat
     3961 ggcggaaaat gtcagggctt atgcaacggg agaacgcggc gctgagcgag cgcgtgacgc
     4021 gcttgagtca gcaggtggaa cgcttgagcg ggcaactgca gcgtttgagc cggtagtgca
     4081 gcgtcatgag atggccgtgg ccgcagaacg ggcgcacgag caacggcagc acgaaaagga
     4141 actgacggaa gcgcgttccc ggcagcgaag ctatgacggt ccgtcgctgg gctgaaatgc
     4201 aggaaaacag ggttctcatc gggcatttac gctgaaaccg gatgtcattc acctggctgc
     4261 atggctatgc agccaggtaa aatttatctg tcgcgaacgg ggcggtttat cgggtggttt
     4321 gttgccggtt ttacctgact gccaccccgt tcgcggcgaa cccgtccggg gcggtgcggg
     4381 caacgggtgt tatgtttaat cagcgtgaac ggcagataca aaaaagcccc ggagggcttt
     4441 taactactga cttatttttt tgaagatttg ctgggtttca atttgtcagt atttcccggc
     4501 gtttttttat tgtcacgctg gcgtttatca ggttcccctg ttgaatcggc aattcgtttc
     4561 ggacccggct taagacccat aatcgttatc ctttcaatag ttaagaggaa agccctcaag
     4621 ctagatatat tgaccgcgtt acggattatc aagaggggct aacaagatta ttttttgttc
     4681 ttttaggttg attgtggtac tgttgatata catgtatagc aaatggtgtt cgggaggttt
     4741 atatgcttgc tatccggtta tctgatgaga ttgagtcccg tctggactcg ctggcgaagc
     4801 aaaccggcag aacaaagacg ttttatgcgc gggaagcaat actggcgcat ctggaagacc
     4861 tggaggatta ttatctttca gcagaaactg ctgcacgcgt tcgccgtggt gatgaagcag
     4921 tgcattcgtc tgaagacgtg aggaagtcac ttggtctgga cgattaacta ttccgatcgg
     4981 gcgctcaaat cgttacgcaa gatggacaaa cagaacgcac gacggattgt ggattttatg
     5041 agtttacgca ttgcagttgc tgccgatcct cgccagtcag ggaagccgct caaaggtgag
     5101 ctgggcgagt tctggcgcta tcgggtggga gattatcgcg ttctgtgtga gatccgagat
     5161 gacgagcttg ttatccttgc cgccacgatt ggacatcgcc gcgaagttta cgactgaagc
     5221 ccgctatgcg ggcttttttg atgccgacaa caggtattat ggtaaatact cgactaacta
     5281 cgtgttctac tgtttgtcgg ttttagttaa ccagcaggtt gtcttaacga taatgtagcc
     5341 gttattttta actaataagg tcatattgtt aacgtcaggc ataataaaag acattatggc
     5401 ctcagagtta tcatcagaag cagctctctg cattactact tcgattccct tttctttgaa
     5461 tctataagta tccagttgcc tattaaactt agaaagacct acaaccatac ttagtttgtt
     5521 atctttaaca gtaagagatg cttcctgagt accattacat cggtagtaag cggtgtaacc
     5581 gtcagcaaaa gatcga
//
