LOCUS       NZ_CP084501             5596 bp    DNA     circular CON 10-JAN-2024
DEFINITION  Klebsiella pneumoniae strain 1632 plasmid p1632-4, complete
            sequence.
ACCESSION   NZ_CP084501
VERSION     NZ_CP084501.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN21874042
            Assembly: GCF_020405285.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5596)
  AUTHORS   Zhou,Y.
  TITLE     Klebsiella pneumoniae harboring armA rmtB and KPC-2
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5596)
  AUTHORS   Zhou,Y.
  TITLE     Direct Submission
  JOURNAL   Submitted (29-SEP-2021) Department of Clinical Laboratory Medicine,
            Shanghai Pulmonary Hospital, Yangpu District, Shanghai 200082, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Flye v. V2.5; CANU v. V1.7.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/10/2024 04:05:03
            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)                     :: 5,801
            CDSs (total)                      :: 5,677
            Genes (coding)                    :: 5,539
            CDSs (with protein)               :: 5,539
            Genes (RNA)                       :: 124
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 138
            CDSs (without protein)            :: 138
            Pseudo Genes (ambiguous residues) :: 0 of 138
            Pseudo Genes (frameshifted)       :: 53 of 138
            Pseudo Genes (incomplete)         :: 86 of 138
            Pseudo Genes (internal stop)      :: 15 of 138
            Pseudo Genes (multiple problems)  :: 16 of 138
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP084501.1.
            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="1632"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p1632-4"
                     /geo_loc_name="China"
                     /collection_date="2018-11-09"
     gene            join(5440..5596,1..56)
                     /locus_tag="LDL62_RS28890"
                     /old_locus_tag="LDL62_28890"
     CDS             join(5440..5596,1..56)
                     /locus_tag="LDL62_RS28890"
                     /old_locus_tag="LDL62_28890"
                     /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            723..947
                     /locus_tag="LDL62_RS28895"
                     /old_locus_tag="LDL62_28895"
     CDS             723..947
                     /locus_tag="LDL62_RS28895"
                     /old_locus_tag="LDL62_28895"
                     /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            931..1197
                     /locus_tag="LDL62_RS28900"
                     /old_locus_tag="LDL62_28900"
     CDS             931..1197
                     /locus_tag="LDL62_RS28900"
                     /old_locus_tag="LDL62_28900"
                     /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(1267..1617)
                     /locus_tag="LDL62_RS28905"
                     /old_locus_tag="LDL62_28905"
     CDS             complement(1267..1617)
                     /locus_tag="LDL62_RS28905"
                     /old_locus_tag="LDL62_28905"
                     /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(1683..2228)
                     /locus_tag="LDL62_RS28910"
                     /old_locus_tag="LDL62_28910"
     CDS             complement(1683..2228)
                     /locus_tag="LDL62_RS28910"
                     /old_locus_tag="LDL62_28910"
                     /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            complement(2254..2580)
                     /locus_tag="LDL62_RS28915"
                     /old_locus_tag="LDL62_28915"
     CDS             complement(2254..2580)
                     /locus_tag="LDL62_RS28915"
                     /old_locus_tag="LDL62_28915"
                     /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(2938..3096)
                     /locus_tag="LDL62_RS29115"
     CDS             complement(2938..3096)
                     /locus_tag="LDL62_RS29115"
                     /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            3736..3912
                     /locus_tag="LDL62_RS28920"
                     /old_locus_tag="LDL62_28920"
     CDS             3736..3912
                     /locus_tag="LDL62_RS28920"
                     /old_locus_tag="LDL62_28920"
                     /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            3902..4246
                     /locus_tag="LDL62_RS28925"
                     /old_locus_tag="LDL62_28925"
     CDS             3902..4246
                     /locus_tag="LDL62_RS28925"
                     /old_locus_tag="LDL62_28925"
                     /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            4455..>4889
                     /locus_tag="LDL62_RS29000"
                     /pseudo=""
     CDS             4455..>4889
                     /locus_tag="LDL62_RS29000"
                     /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            4924..5433
                     /locus_tag="LDL62_RS28935"
                     /old_locus_tag="LDL62_28935"
     CDS             4924..5433
                     /locus_tag="LDL62_RS28935"
                     /old_locus_tag="LDL62_28935"
                     /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"
     Typing          3571..3650
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="90.361"
                     /coverage="97.0"
                     /evalue="1.1100000000000001e-21"
     Typing          complement(2988..3385)
                     /name="rep_cluster_2370"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.526"
                     /coverage="91.0"
                     /evalue="3.03e-139"
     Typing          4237..5594
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.779"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gcttgagtca gcaggtggaa cgcttgagcg ggcaactgca gcgtttgagc cggtagtgca
       61 gcgtcatgag atggccgtgg ccgcagaacg ggcgcacgag caacggcagc acgaaaagga
      121 actgacggaa gcgcgttccc ggcagcgaag ctatgacggt ccgtcgctgg gctgaaatgc
      181 aggaaaacag ggttctcatc gggcatttac gctgaaaccg gatgtcattc acctggctgc
      241 atggctatgc agccaggtaa aatttatctg tcgcgaacgg ggcggtttat cgggtggttt
      301 gttgccggtt ttacctgact gccaccccgt tcgcggcgaa cccgtccggg gcggtgcggg
      361 caacgggtgt tatgtttaat cagcgtgaac ggcagataca aaaaagcccc ggagggcttt
      421 taactactga cttatttttt tgaagatttg ctgggtttca atttgtcagt atttcccggc
      481 gtttttttat tgtcacgctg gcgtttatca ggttcccctg ttgaatcggc aattcgtttc
      541 ggacccggct taagacccat aatcgttatc ctttcaatag ttaagaggaa agccctcaag
      601 ctagatatat tgaccgcgtt acggattatc aagaggggct aacaagatta ttttttgttc
      661 ttttaggttg attgtggtac tgttgatata catgtatagc aaatggtgtt cgggaggttt
      721 atatgcttgc tatccggtta tctgatgaga ttgagtcccg tctggactcg ctggcgaagc
      781 aaaccggcag aacaaagacg ttttatgcgc gggaagcaat actggcgcat ctggaagacc
      841 tggaggatta ttatctttca gcagaaactg ctgcacgcgt tcgccgtggt gatgaagcag
      901 tgcattcgtc tgaagacgtg aggaagtcac ttggtctgga cgattaacta ttccgatcgg
      961 gcgctcaaat cgttacgcaa gatggacaaa cagaacgcac gacggattgt ggattttatg
     1021 agtttacgca ttgcagttgc tgccgatcct cgccagtcag ggaagccgct caaaggtgag
     1081 ctgggcgagt tctggcgcta tcgggtggga gattatcgcg ttctgtgtga gatccgagat
     1141 gacgagcttg ttatccttgc cgccacgatt ggacatcgcc gcgaagttta cgactgaagc
     1201 ccgctatgcg ggcttttttg atgccgacaa caggtattat ggtaaatact cgactaacta
     1261 cgtgttctac tgtttgtcgg ttttagttaa ccagcaggtt gtcttaacga taatgtagcc
     1321 gttattttta actaataagg tcatattgtt aacgtcaggc ataataaaag acattatggc
     1381 ctcagagtta tcatcagaag cagctctctg cattactact tcgattccct tttctttgaa
     1441 tctataagta tccagttgcc tattaaactt agaaagacct acaaccatac ttagtttgtt
     1501 atctttaaca gtaagagatg cttcctgagt accattacat cggtagtaag cggtgtaacc
     1561 gtcagcaaaa gatcgaccgg ggaatataaa tgctaggaac gcaattaacc aatacatagt
     1621 tgagaatctt ggtattacac atttcactat cctctctttc atttttcgtt caccatactt
     1681 tgttatctga tttttaattt ttctatttta taaaccaagt ctctaccaaa aaggcgaaaa
     1741 ttatcctcaa ataataataa ttgtttaaga acatccatga aagcagctgc ttcaccctca
     1801 gttatgggag ctactctata taacatataa cctgagttaa gggtttcttt tatactttct
     1861 tcaatgctca ttataaatat tagtggatta tcatttttct tcccccatgg gtttctaatt
     1921 aatccttcga tgtactcagg tcctttgcgt cctattgcct gcgcaatatt ttttatttca
     1981 tctgcgtgag ggctttgttg tacagctttg tttatgcctg cttgagtgat tttcagagac
     2041 tctacaccgt gtatgttgta tgagataaaa tgtaataaat taagatgcaa tgcaattaat
     2101 ccatttttgt ttacatctga gtatttggat aaaaaacgta atgaagtgtt aactctccct
     2161 tgaagcctaa caattgggag tgctgccttg tatatttcct tctccgttaa ataccgttta
     2221 aaaaacataa ttctccgcct ccgtatagcg tgcctatttt atttcgtcgt aaaacttagc
     2281 tctgaaatat tcctttagaa ccatcatgtc attaataatt gaatctatct catccatttt
     2341 ttcttggtat tcttttaatg gtgaagggag cggtaactca atatttgaaa agtgattggc
     2401 gagataggga tcaaggtttc tcatccattc aggcttttcg ccaatgcgtt cttcaactga
     2461 aagtgaacct gataatctct ggttaataag atcacttaga ctcattttgg ttttattcga
     2521 aagccgttgt aaggattgct ttaatcctat atctagcatg atatttgttc tttctctcat
     2581 taccccccct tgctattgcg ttttttgttg cgcacaaagc taccattgcg cattaagaaa
     2641 cgcaataaaa aaggagggag ggagtggttt gtacatgatg tgcagtgcgc tgagggcatc
     2701 agtggcgggt gtttttccgt gggatggatg gagctccggg gataacagaa ctgacgatca
     2761 tttaaaggat cttcttgaga tccttttttt ctgcgcgtaa tctcttgcac tgtaaacgaa
     2821 aaaaccgcct ggggaggcgg tttgatcgaa ggttaagtca gttggggaac tgcttaaccg
     2881 ggtaactggg tatacgagac cgcagatacc aaaactgttc tttcagtgta gccgcagtta
     2941 ggcacccact tcaagacctc tcaatatctc tctcgtatat atccagttac caatggctgc
     3001 tgccagtggc gtttttgcgt gtccgtccgg gttggactca agatgatagt taccggaaag
     3061 ggcgcagcag tcgggctgaa cggggggttc gtgcatacag cccagcttgg agcgaacgac
     3121 ctaaaccgag ccgagatacc agcagcgtga gctatgagaa agcgccacgc ttcccgaaag
     3181 ggaaaaaggc ggaacaggta tccggtaaac ggcagggtcg gaacaggaga gcgcacgagg
     3241 gagccgccgg agagaaatca ccggcatctt taagtcctgt cgggtttcgt cctcctctga
     3301 cttgagcgtc catttctgtg atgctcgtca ggggaggcgg agcctatgga aaaacggcaa
     3361 cgccgcatcc ttttctccgg ccctttctga tttgagcgcc tttgctttat cccgttatcc
     3421 gtgagtcggt cacgcccgcc gcagccgaac ggcaggagcg cagctaccga gtgagcgagg
     3481 aggcgtcatt tcatctgtcc gtgcatggta ttgcggacgc tcctgagcca catatcacac
     3541 ctgccacatg aggcactttc atgaatcgtg ctctcatgcc aacatagtaa gccagtatac
     3601 acagcgtaaa cgctgtgact ggttcagggc tgcgccccga aacccgctaa caccactgac
     3661 gcgctggcgc ttgtccaacg ccggagcgac ccggaaaact tttccgtgcc gtccggcgtt
     3721 tgcgaaggag ggataatgca gaagccgaag aagaagccgc tcgtcgtaaa aaaaagatcc
     3781 tggcatccgg cagtgatggc aaatctgatg cgtcaggcac aggaggaaga ttaccgccgg
     3841 gagcagatgg cagagcttga gcgttcagcc cggtcacatt ttgcggatat cggaggagag
     3901 gatggcggtt aagcgtaccc gttttttagg tatccgggtg accgatgggg agtaccagca
     3961 gctgctggag cgctgcaatg gaaggcaact ggcggtgtgg atgcgggaaa cctgtctcga
     4021 tacgcgcccg gcgcggtcgt tgcggctgcc gtccatcgat ccggttttgc tgcgccagct
     4081 tgccgggatg gggaacaacc tcaaccagat cgcccggaaa attaacggcg gccagtggtc
     4141 aggcgctgac cgggttcagg tggtggccgc gctgatggcc attgatgccg aactcgagcg
     4201 gctgcggcat gccgtgctgg aaaagggggc agacgatgat cgttaagttt catccgcgag
     4261 ggcgaggcgg cggtgccggg ccggtggatt atctgctggg gaaagaccgc cagcgcgacg
     4321 gggccatcgt cctgcaggga aagccggagg aggtccggga gcttatcgac gcctcgccct
     4381 acgccaaaaa gtacacctcc ggcgtcctgt cttttgctga acaggattta ccgcccggcc
     4441 agcgtgaaaa gctgatggcg agcttcgagc gggttctgat gcccggactc gataaagacc
     4501 agtacagcgt gctgtgggtt gaacaccggg acaaggggcg gctggaactg aattttctgg
     4561 taccgaacac ggaactgctg accggcaggc gtctccagcc gtactacgac cgggcagacc
     4621 gtccgcgcat cgatgcgtgg cagaccgtgg tgaacgggcg actggggctg cacgacccga
     4681 acgcaccgga gaaccggcgc gcgctggtga cgccatcttc gttacccaaa acgaagcagg
     4741 aagccgcaga ggctattacg cggggcttac tggccctcgc ctcgtcaggg gagcttaaaa
     4801 cgcgtcagga cgtcactgag gcgctggaaa gcgcaggttt tgaggtcgtg cgcaccacaa
     4861 agagcagcat cagcattgcc gacccggacg gagggcgaaa catccgactt aagggagcca
     4921 tctatgaaca gtcttttaac gctggcgaag gacttagagc agaaatcgaa agcgcagcag
     4981 cagagtaccg gcgaaatgct gaaagccgca ttcagcgagc acgagaagtc tgtcagagcg
     5041 gaactgagcg aaagcgggaa gagaatcagc gccgccatcc gcgcccacga gcagggtatg
     5101 agcgcggcca tgcagtcgaa ccgcctgagc gtgatgcgta tggtcgggcg gacatggctg
     5161 accatcacga tggtgtcagg actgctgttc gccagcctga gcggggtgtt gtggtatcag
     5221 gggagcttga tagcgtcaaa tctggccgaa atcgaccggc agaacgcagc gctgtcgaag
     5281 ctgaacgcga agacctgggg cgtgacgtac ctggaagaca gcaacggacg ttttctggtg
     5341 ctgccgaagg ggacggccgt agacaggacg cagagctgga cggtcgggaa cgggcggtcg
     5401 aagcagaacg cgctgagact ggtgaaggag taagtgccga tgaccgagct ggaaaaacag
     5461 ttgctgagcg cattagagca gctacagcag gactactcga aaaggctgga cgagtgggag
     5521 agcgccttcg gggaatggcg gaaaatgtca gggcttatgc aacgggagaa cgcggcgctg
     5581 agcgagcgcg tgacgc
//
