LOCUS       NZ_CP066253             5596 bp    DNA     circular CON 30-NOV-2023
DEFINITION  Klebsiella pneumoniae strain CRKP52R plasmid p5, complete sequence.
ACCESSION   NZ_CP066253
VERSION     NZ_CP066253.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN17074909
            Assembly: GCF_016403065.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5596)
  AUTHORS   He,F.
  TITLE     Plasmid-borne tetA gene is an important factor causing tigecycline
            resistance in carbapenem resistant Klebsiella pneumoniae ST11
            clinical strains
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5596)
  AUTHORS   He,F.
  TITLE     Direct Submission
  JOURNAL   Submitted (16-DEC-2020) Department of Clinical Laboratory, Zhejiang
            Provincial People's Hospital, 158 Shangtang Road, Hangzhou, Zhejiang
            310014, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v. 0.4.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 250.0x
            Sequencing Technology :: Oxford Nanopore GridION; Illumina NextSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/29/2023 23:30:54
            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)                     :: 5,920
            CDSs (total)                      :: 5,798
            Genes (coding)                    :: 5,617
            CDSs (with protein)               :: 5,617
            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)              :: 181
            CDSs (without protein)            :: 181
            Pseudo Genes (ambiguous residues) :: 0 of 181
            Pseudo Genes (frameshifted)       :: 68 of 181
            Pseudo Genes (incomplete)         :: 120 of 181
            Pseudo Genes (internal stop)      :: 25 of 181
            Pseudo Genes (multiple problems)  :: 32 of 181
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP066253.1.
            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="CRKP52R"
                     /isolation_source="sputum"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p5"
                     /geo_loc_name="China:Hangzhou"
                     /collection_date="05-May-2018"
                     /collected_by="Fang He"
     gene            complement(307..519)
                     /locus_tag="JCR34_RS29340"
                     /old_locus_tag="JCR34_29330"
     CDS             complement(307..519)
                     /locus_tag="JCR34_RS29340"
                     /old_locus_tag="JCR34_29330"
                     /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            complement(526..1035)
                     /locus_tag="JCR34_RS29345"
                     /old_locus_tag="JCR34_29335"
     CDS             complement(526..1035)
                     /locus_tag="JCR34_RS29345"
                     /old_locus_tag="JCR34_29335"
                     /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            complement(<1070..1774)
                     /locus_tag="JCR34_RS29920"
                     /old_locus_tag="JCR34_29340"
                     /pseudo=""
     CDS             complement(<1070..1774)
                     /locus_tag="JCR34_RS29920"
                     /old_locus_tag="JCR34_29340"
                     /inference="COORDINATES: protein motif:HMM:NF015397.3"
                     /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            complement(1713..2057)
                     /locus_tag="JCR34_RS29355"
                     /old_locus_tag="JCR34_29345"
     CDS             complement(1713..2057)
                     /locus_tag="JCR34_RS29355"
                     /old_locus_tag="JCR34_29345"
                     /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            complement(2047..2223)
                     /locus_tag="JCR34_RS29360"
                     /old_locus_tag="JCR34_29350"
     CDS             complement(2047..2223)
                     /locus_tag="JCR34_RS29360"
                     /old_locus_tag="JCR34_29350"
                     /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            2863..3021
                     /locus_tag="JCR34_RS29925"
     CDS             2863..3021
                     /locus_tag="JCR34_RS29925"
                     /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            3379..3705
                     /locus_tag="JCR34_RS29365"
                     /old_locus_tag="JCR34_29355"
     CDS             3379..3705
                     /locus_tag="JCR34_RS29365"
                     /old_locus_tag="JCR34_29355"
                     /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            3731..4276
                     /locus_tag="JCR34_RS29370"
                     /old_locus_tag="JCR34_29360"
     CDS             3731..4276
                     /locus_tag="JCR34_RS29370"
                     /old_locus_tag="JCR34_29360"
                     /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="WP_023317533.1"
                     /translation="MFFKRYLTEKEIYKAALPIVRLQGRVNTSLRFLSKYSDVNKNGLI
                     ALHLNLLHFISYNIHGVESLKITQAGINKAVQQSPHADEIKNIAQAIGRKGPEYIEGLI
                     RNPWGKKNDNPLIFIMSIEESIKETLNSGYMLYRVAPITEGEAAAFMDVLKQLLLFEDN
                     FRLFGRDLVYKIEKLKIR"
                     /name="hypothetical protein"
     gene            4342..4692
                     /locus_tag="JCR34_RS29375"
                     /old_locus_tag="JCR34_29365"
     CDS             4342..4692
                     /locus_tag="JCR34_RS29375"
                     /old_locus_tag="JCR34_29365"
                     /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(4762..5028)
                     /locus_tag="JCR34_RS29380"
                     /old_locus_tag="JCR34_29370"
     CDS             complement(4762..5028)
                     /locus_tag="JCR34_RS29380"
                     /old_locus_tag="JCR34_29370"
                     /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"
     gene            complement(5012..5236)
                     /locus_tag="JCR34_RS29385"
                     /old_locus_tag="JCR34_29375"
     CDS             complement(5012..5236)
                     /locus_tag="JCR34_RS29385"
                     /old_locus_tag="JCR34_29375"
                     /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"
     Typing          complement(2310..2386)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="91.25"
                     /coverage="98.0"
                     /evalue="1.04e-21"
     Typing          2575..2972
                     /name="rep_cluster_2370"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.526"
                     /coverage="91.0"
                     /evalue="3.03e-139"
     Typing          complement(192..1723)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.804"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tgcccgcacc gccccggacg ggttcgccgc gaacggggtg gcagtcaggt aaaaccggca
       61 acaaaccacc cgataaaccg ccccgttcgc gacagataaa ttttacctgg ctgcatagcc
      121 atgcagccag gtgaatgaca tccggtttca gcgtaaatgc ccgatgagaa ccctgttttc
      181 ctgcatttca gcccagcgac ggaccgtcat agcttcgctg ccgggaacgc gcttccgtca
      241 gttccttttc gtgctgccgt tgctcgtgcg cccgttctgc ggccacggcc atctcatgac
      301 gctgcactac cggctcaaac gctgcagttg cccgctcaag cgttccacct gctgactcaa
      361 gcgcgtcacg cgctcgctca gcgccgcgtt ctcccgttgc ataagccctg acattttccg
      421 ccattccccg aaggcgctct cccactcgtc cagccttttc gagtagtcct gctgtagctg
      481 ctctaatgcg ctcagcaact gtttttccag ctcggtcatc ggcacttact ccttcaccag
      541 tctcagcgcg ttctgcttcg accgcccgtt cccgaccgtc cagctctgcg tcctgtctac
      601 ggccgtcccc ttcggcagca ccagaaaacg tccgttgctg tcttccaggt acgtcacgcc
      661 ccaggtcttc gcgttcagct tcgacagcgc tgcgttctgc cggtcgattt cggccagatt
      721 tgacgctatc aagctcccct gataccacaa caccccgctc aggctggcga acagcagtcc
      781 tgacaccatc gtgatggtca gccatgtccg cccgaccata cgcatcacgc tcaggcggtt
      841 cgactgcatg gccgcgctca taccctgctc gtgggcgcgg atggcggcgc tgattctctt
      901 cccgctttcg ctcagttccg ctctgacaga cttctcgtgc tcgctgaatg cggctttcag
      961 catttcgccg gtactctgct gctgcgcttt cgatttctgc tctaagtcct tcgccagcgt
     1021 taaaagactg ttcatagatg gctcccttaa gtcggatgtt tcgccctccg tccgggtcgg
     1081 caatgctgat gctgctcttt gtggtgcgca cgacctcaaa acctgcgctt tccagcgcct
     1141 cagtgacgtc ctgacgcgtt ttaagctccc ctgacgaggc gagggccagt aagccccgcg
     1201 taatagcctc tgcggcttcc tgcttcgttt tgggtaacga agatggcgtc accagcgcgc
     1261 gccggttctc cggtgcgttc gggtcgtgca gccccagtcg cccgttcacc acggtctgcc
     1321 acgcatcgat gcgcggacgg tctgcccggt cgtagtacgg ctggagacgc ctgccggtca
     1381 gcagttccgt gttcggtacc agaaaattca gttccagccg ccccttgtcc cggtgttcaa
     1441 cccacagcac gctgtactgg tctttatcga gtccgggcat cagaacccgc tcgaagctcg
     1501 ccatcagctt ttcacgctgg ccgggcggta aatcctgttc agcaaaagac aggacgccgg
     1561 aggtgtactt tttggcgtag ggcgaggcgt cgataagctc ccggacctcc tccggctttc
     1621 cctgcaggac gatggccccg tcgcgctggc ggtctttccc cagcagataa tccaccggcc
     1681 cggcaccgcc gcctcgccct cgcggatgaa acttaacgat catcgtctgc ccccttttcc
     1741 agcacggcat gccgcagccg ctcgagttcg gcatcaatgg ccatcagcgc ggccaccacc
     1801 tgaacccggt cagcgcctga ccactggccg ccgttaattt tccgggcgat ctggttgagg
     1861 ttgttcccca tcccggcaag ctggcgcagc aaaaccggat cgatggacgg cagccgcaac
     1921 gaccgcgccg ggcgcgtatc gagacaggtt tcccgcatcc acaccgccag ttgccttcca
     1981 ttgcagcgct ccagcagctg ctggtactcc ccatcggtca cccggatacc taaaaaacgg
     2041 gtacgcttaa ccgccatcct ctcctccgat atccgcaaaa tgtgaccggg ctgaacgctc
     2101 aagctctgcc atctgctccc ggcggtaatc ttcctcctgt gcctgacgca tcagatttgc
     2161 catcactgcc ggatgccagg atcttttttt tacgacgagc ggcttcttct tcggcttctg
     2221 cattatccct ccttcgcaaa cgccggacgg cacggaaaag ttttccgggt cgctccggcg
     2281 ttggacaagc gccagcgcgt cagtggtgtt agcgggtttc ggggcgcagc cctgaaccag
     2341 tcacagcgtt tacgctgtgt atactggctt actatgttgg catgagagca cgattcatga
     2401 aagtgcctca tgtggcaggt gtgatatgtg gctcaggagc gtccgcaata ccatgcacgg
     2461 acagatgaaa tgacgcctcc tcgctcactc ggtagctgcg ctcctgccgt tcggctgcgg
     2521 cgggcgtgac cgactcacgg ataacgggat aaagcaaagg cgctcaaatc agaaagggcc
     2581 ggagaaaagg atgcggcgtt gccgtttttc cataggctcc gcctcccctg acgagcatca
     2641 cagaaatgga cgctcaagtc agaggaggac gaaacccgac aggacttaaa gatgccggtg
     2701 atttctctcc ggcggctccc tcgtgcgctc tcctgttccg accctgccgt ttaccggata
     2761 cctgttccgc ctttttccct ttcgggaagc gtggcgcttt ctcatagctc acgctgctgg
     2821 tatctcggct cggtttaggt cgttcgctcc aagctgggct gtatgcacga accccccgtt
     2881 cagcccgact gctgcgccct ttccggtaac tatcatcttg agtccaaccc ggacggacac
     2941 gcaaaaacgc cactggcagc agccattggt aactggatat atacgagaga gatattgaga
     3001 ggtcttgaag tgggtgccta actgcggcta cactgaaaga acagttttgg tatctgcggt
     3061 ctcgtatacc cagttacccg gttaagcagt tccccaactg acttaacctt cgatcaaacc
     3121 gcctccccag gcggtttttt cgtttacagt gcaagagatt acgcgcagaa aaaaaggatc
     3181 tcaagaagat cctttaaatg atcgtcagtt ctgttatccc cggagctcca tccatcccac
     3241 ggaaaaacac ccgccactga tgccctcagc gcactgcaca tcatgtacaa accactccct
     3301 ccctcctttt ttattgcgtt tcttaatgcg caatggtagc tttgtgcgca acaaaaaacg
     3361 caatagcaag ggggggtaat gagagaaaga acaaatatca tgctagatat aggattaaag
     3421 caatccttac aacggctttc gaataaaacc aaaatgagtc taagtgatct tattaaccag
     3481 agattatcag gttcactttc agttgaagaa cgcattggcg aaaagcctga atggatgaga
     3541 aaccttgatc cctatctcgc caatcacttt tcaaatattg agttaccgct cccttcacca
     3601 ttaaaagaat accaagaaaa aatggatgag atagattcaa ttattaatga catgatggtt
     3661 ctaaaggaat atttcagagc taagttttac gacgaaataa aataggcacg ctatacggag
     3721 gcggagaatt atgtttttta aacggtattt aacggagaag gaaatataca aggcagcact
     3781 cccaattgtt aggcttcaag ggagagttaa cacttcatta cgttttttat ccaaatactc
     3841 agatgtaaac aaaaatggat taattgcatt gcatcttaat ttattacatt ttatctcata
     3901 caacatacac ggtgtagagt ctctgaaaat cactcaagca ggcataaaca aagctgtaca
     3961 acaaagccct cacgcagatg aaataaaaaa tattgcgcag gcaataggac gcaaaggacc
     4021 tgagtacatc gaaggattaa ttagaaaccc atgggggaag aaaaatgata atccactaat
     4081 atttataatg agcattgaag aaagtataaa agaaaccctt aactcaggtt atatgttata
     4141 tagagtagct cccataactg agggtgaagc agctgctttc atggatgttc ttaaacaatt
     4201 attattattt gaggataatt ttcgcctttt tggtagagac ttggtttata aaatagaaaa
     4261 attaaaaatc agataacaaa gtatggtgaa cgaaaaatga aagagaggat agtgaaatgt
     4321 gtaataccaa gattctcaac tatgtattgg ttaattgcgt tcctagcatt tatattcccc
     4381 ggtcgatctt ttgctgacgg ttacaccgct tactaccgat gtaatggtac tcaggaagca
     4441 tctcttactg ttaaagataa caaactaagt atggttgtag gtctttctaa gtttaatagg
     4501 caactggata cttatagatt caaagaaaag ggaatcgaag tagtaatgca gagagctgct
     4561 tctgatgata actctgaggc cataatgtct tttattatgc ctgacgttaa caatatgacc
     4621 ttattagtta aaaataacgg ctacattatc gttaagacaa cctgctggtt aactaaaacc
     4681 gacaaacagt agaacacgta gttagtcgag tatttaccat aatacctgtt gtcggcatca
     4741 aaaaagcccg catagcgggc ttcagtcgta aacttcgcgg cgatgtccaa tcgtggcggc
     4801 aaggataaca agctcgtcat ctcggatctc acacagaacg cgataatctc ccacccgata
     4861 gcgccagaac tcgcccagct cacctttgag cggcttccct gactggcgag gatcggcagc
     4921 aactgcaatg cgtaaactca taaaatccac aatccgtcgt gcgttctgtt tgtccatctt
     4981 gcgtaacgat ttgagcgccc gatcggaata gttaatcgtc cagaccaagt gacttcctca
     5041 cgtcttcaga cgaatgcact gcttcatcac cacggcgaac gcgtgcagca gtttctgctg
     5101 aaagataata atcctccagg tcttccagat gcgccagtat tgcttcccgc gcataaaacg
     5161 tctttgttct gccggtttgc ttcgccagcg agtccagacg ggactcaatc tcatcagata
     5221 accggatagc aagcatataa acctcccgaa caccatttgc tatacatgta tatcaacagt
     5281 accacaatca acctaaaaga acaaaaaata atcttgttag cccctcttga taatccgtaa
     5341 cgcggtcaat atatctagct tgagggcttt cctcttaact attgaaagga taacgattat
     5401 gggtcttaag ccgggtccga aacgaattgc cgattcaaca ggggaacctg ataaacgcca
     5461 gcgtgacaat aaaaaaacgc cgggaaatac tgacaaattg aaacccagca aatcttcaaa
     5521 aaaataagtc agtagttaaa agccctccgg ggcttttttg tatctgccgt tcacgctgat
     5581 taaacataac acccgt
//
