LOCUS       NZ_CP100081             5640 bp    DNA     circular CON 22-NOV-2023
DEFINITION  Klebsiella pneumoniae strain RJKP36 plasmid pRJKP36-5, complete
            sequence.
ACCESSION   NZ_CP100081
VERSION     NZ_CP100081.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN29388314
            Assembly: GCF_025884095.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5640)
  AUTHORS   Hu,Y., Jiang,J., Wang,D., Guo,Q. and Wang,M.
  TITLE     Plasmids carrying blaKPC-2 tend to evade CRISPR immunity in ST15
            Klebsiella pneumoniae
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5640)
  AUTHORS   Hu,Y., Jiang,J., Wang,D., Guo,Q. and Wang,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (27-JUN-2022) Institute of Antibiotics, Institute of
            Antibiotics, No. 12 Wulumuqi Road, Shanghai, Shanghai 200000, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 01-AUG-2021
            Assembly Method                   :: Unicycler v. v0.4.9
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200x
            Sequencing Technology :: Illumina+Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/22/2023 14:03:24
            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)                     :: 5,764
            CDSs (total)                      :: 5,640
            Genes (coding)                    :: 5,277
            CDSs (with protein)               :: 5,277
            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)              :: 363
            CDSs (without protein)            :: 363
            Pseudo Genes (ambiguous residues) :: 0 of 363
            Pseudo Genes (frameshifted)       :: 249 of 363
            Pseudo Genes (incomplete)         :: 132 of 363
            Pseudo Genes (internal stop)      :: 42 of 363
            Pseudo Genes (multiple problems)  :: 56 of 363
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP100081.1.
            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..5640
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="RJKP36"
                     /isolation_source="throat swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pRJKP36-5"
                     /geo_loc_name="China"
                     /lat_lon="31.02 N 121.04 E"
                     /collection_date="2018"
                     /collected_by="Ruijin Hospital"
     gene            join(4223..5640,1..358)
                     /locus_tag="NIL00_RS28705"
                     /old_locus_tag="NIL00_28690"
     CDS             join(4223..5640,1..358)
                     /locus_tag="NIL00_RS28705"
                     /old_locus_tag="NIL00_28690"
                     /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="DUF262 domain-containing protein"
                     /protein_id="WP_124046799.1"
                     /translation="MRFDASPFNMNSILSVEKRYEIPRNQREFSWERIQLEELWADLLR
                     NIVMDDNGTIKLHEYFIGTIVLSGVDSDDVLEVVDGQQRLSVITMMLSIISRYFRKNKN
                     DTTADNIYKKYIVTINNTLDRNSLNSDGESVIQKLTRSVGGEYFKKIVQGKEESDAKAT
                     NDEEKKIRYAVTFFKRALRKKSLCSAIFKTNDDSFTKADYDLCLNAIYKMITNYLYIVR
                     IAVDRGDDAYDIFEVLNARGINLSSIDLIKNKVFQSCTTTFPEDEARRKWVHIYEQLGS
                     VGETMTDYIRCWWLSKYGYIGEDQLYRSFKREILNENSLLTADSFLEEIYNDVSLYMSM
                     VAPSTKYWNLSHQRPILDALANINTFSVTVPRPFILSLLRTRRDKSRLMKQSELIETLE
                     FLEKFHFKFNAVCRMRPSGIDSKYSVFAVRADRAVSKASLKNTIDETVDFLKRKAPSEK
                     VFKDCLMKNIEYKDDKLSQRKLIIYIFETLERLAVGTKELKYHMVSIEHIGSQSNFSPT
                     YVGKLGNLLPLCFDINRDCENMPLAGKLPEYARSRLELVKQFNTANAAKNTWEVSDAQT
                     RQEQITNALNAAFTL"
                     /name="DUF262 domain-containing protein"
     gene            590..916
                     /locus_tag="NIL00_RS28710"
                     /old_locus_tag="NIL00_28695"
     CDS             590..916
                     /locus_tag="NIL00_RS28710"
                     /old_locus_tag="NIL00_28695"
                     /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_038885858.1"
                     /translation="MEKRTKEIKIRLTETEHQRLLDRCDRTHLAEWLRQLGLGEHTSRK
                     RRVPEVAPELLRQVSGIGNNLNQIARRLNQADSLTPSERASLLVVLTSLDRQLGDLLEQ
                     NRDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1125..>1547
                     /locus_tag="NIL00_RS28715"
                     /old_locus_tag="NIL00_28700"
                     /pseudo=""
     CDS             1125..>1547
                     /locus_tag="NIL00_RS28715"
                     /old_locus_tag="NIL00_28700"
                     /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            1594..2079
                     /locus_tag="NIL00_RS28720"
                     /old_locus_tag="NIL00_28705"
     CDS             1594..2079
                     /locus_tag="NIL00_RS28720"
                     /old_locus_tag="NIL00_28705"
                     /inference="COORDINATES: protein motif:HMM:NF016710.3"
                     /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_139914218.1"
                     /translation="MSEILNLAKAFEEKSKQQAQDTEQSVKREFARLETSISAELQSSS
                     QSISNAIREQNGRLTGMLRASVSTAMAWIFLCFALLIGIMGGIIWFQGTIITSRLSEMD
                     SYSQQLESLKAKSGAGVAIYSDDKHRNTYMVVLPKQAHGVETYTSTTDNTVVKYTAK"
                     /name="MbeB family mobilization protein"
     gene            2149..2373
                     /locus_tag="NIL00_RS28725"
                     /old_locus_tag="NIL00_28710"
     CDS             2149..2373
                     /locus_tag="NIL00_RS28725"
                     /old_locus_tag="NIL00_28710"
                     /inference="COORDINATES: protein motif:HMM:NF016769.3"
                     /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_223825645.1"
                     /translation="MEKQLLSALESLQTSYEQQQQAWQDSYSSLQHMFEATSQALTHSD
                     RVCQHLSSQVDSLRVQVESLSRNVSRLMR"
                     /name="MbeD family mobilization/exclusion protein"
     gene            2529..2861
                     /locus_tag="NIL00_RS28730"
                     /old_locus_tag="NIL00_28715"
     CDS             2529..2861
                     /locus_tag="NIL00_RS28730"
                     /old_locus_tag="NIL00_28715"
                     /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_044816545.1"
                     /translation="MSHAIEFIETPMFTRQIKQIATDEELRELQKTLIESPDKGDLIQK
                     TGGLRKIRMATGNQGKSGSARVIYFLATAEVIYLVMAYPKSTKDSLTDAEKAVLKSLTQ
                     QLKDEV"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            2863..3147
                     /gene="nadS"
                     /locus_tag="NIL00_RS28735"
                     /old_locus_tag="NIL00_28720"
     CDS             2863..3147
                     /gene="nadS"
                     /locus_tag="NIL00_RS28735"
                     /old_locus_tag="NIL00_28720"
                     /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            3340..4233
                     /locus_tag="NIL00_RS28740"
                     /old_locus_tag="NIL00_28725"
     CDS             3340..4233
                     /locus_tag="NIL00_RS28740"
                     /old_locus_tag="NIL00_28725"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006674370.1"
                     /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_044816547.1"
                     /translation="MNNAVLELFNDRLPHKPYFSDDLHFGVRIAGKERAILAKYIQFNQ
                     PHAMFWLGFDVDRTGAAIDWNDRNAPAPTLTITNPDNGHAHLLYALRTSIRTAPDGKMK
                     PLRYAAAVENALRKKLEADAGYSGLICKNPNHSHWRIAVWQPELYTLDWLADFLDLNAA
                     NDKEIVADYGLGRNCTLFDKTRKWAYRAIRQGWPEYDQWLQACYERATAYNLHFSSPLD
                     DNEVTGIAKSIAKWTSKNFSEDSFREFVSRTHTSEIQSIRGSKSKGGGRPSIGEPWLEH
                     GISRATYFRKLKKNEI"
                     /name="replication initiation protein"
     Typing          907..2465
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.743"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 taaactatct caaagaaaac tcattatcta catatttgaa acactagagc gactagcagt
       61 aggaactaaa gagcttaaat atcatatggt ttcgattgaa catataggct ctcagtcgaa
      121 tttcagtcca acttatgttg gtaagctggg taaccttctg ccgctttgtt tcgatataaa
      181 tagagactgt gaaaatatgc cattagctgg gaaattgcca gaatatgctc gatcacgatt
      241 agagttagtg aagcaattta acactgctaa cgcagctaaa aatacttggg aagtaagtga
      301 tgcccaaacg aggcaagaac agataacaaa cgccctcaac gctgccttca cgctctgatg
      361 tgagactaaa caacctatat cagataacag ccctctttag cagagggctg tttttttgcg
      421 gatagcatag aatctgacat actacttcat actataagcc agtacacaca gcgtcccctc
      481 ttacgaggtg tcgccgtgac tggttcaggg ggctcgccgc cccccgaaac ccccagcatc
      541 cactgcgaaa aattctcacg gtggtgcgaa ttttttctca gcggagccta tggaaaagcg
      601 aacgaaagag atcaaaatcc ggctcaccga aaccgagcat cagcgactgc ttgatcgctg
      661 cgaccgcact caccttgcgg agtggctgcg tcagcttggt ctgggtgaac acacctcccg
      721 caagcgccgt gtgcctgagg tggcgcccga actgctgcgg caggtcagcg ggattggcaa
      781 taacttgaac cagatcgccc gtcgcctgaa ccaggctgat tccctgacgc cttctgaacg
      841 tgcctcgctg ctcgtcgtgc tgaccagcct tgaccggcag cttggcgacc tgctggagca
      901 gaaccgtgat cgttaaaatt cactcacggg gtgcgggttc gggcagcggg ccggtggatt
      961 acctgctggg taaagaccgg cagcgtgaac aggccagcgt tctgcgcggc aaccctgaac
     1021 atgtgcgcga gctgatcgac ggctgcgact ttgcccgcgc ttatacttcc ggcgtgctgt
     1081 catttcagga gccggacatt gcagacgctg agaaatcgcg cctgatggac gaatgggagc
     1141 acacgctgct gaccggcctt gatcgcgacc agtacgcctg cctgtgggtg gagcaccgtg
     1201 acaagggacg gcttgagctg aattttgtca tcccgaacat cgaattgcag agtggaaaac
     1261 gcctgcaacc ctactttgac cgcgccgacc gtccccgcgt caacgcctgg cagaccctga
     1321 ccaacgaccg gctggggctg cgcgacccga atgacccgac ctaccgccgt ccgctgacgc
     1381 aggccagcga tttgccccgc gacaaacagc aggcggcaga gaaaatcacc gccggcctga
     1441 tgaacctgat gcagcagggg gtgatccgca gccggcagga cgtggtgacg cagctggaaa
     1501 gctacggcct gaccgtagcg cgggaaacga aaagcagcat cagcattgcc gatccggacg
     1561 gcggccgaaa tatccggctg aaaggaatga tttatgagcg agattttaaa tttggcgaag
     1621 gccttcgagg agaaatcgaa gcagcaggcg caggataccg agcagagcgt gaagcgcgag
     1681 ttcgcgaggc tggagacgtc tatcagcgcg gaactgcaat caagctcgca gagcatcagc
     1741 aacgctatcc gcgagcagaa cggcagactg acgggcatgc tcagagcctc tgtctcaacg
     1801 gcgatggcgt ggatattcct ctgcttcgcc ctgctgatcg gcatcatggg cgggataatc
     1861 tggtttcagg gcacgatcat cacctcgcgc ctgagcgaga tggacagcta cagccaacag
     1921 ctggagagcc tgaaagcgaa aagcggcgcg ggcgtggcga tctacagcga cgacaagcac
     1981 cgaaacacct acatggtggt gctgccgaag caggcgcacg gcgtggaaac ctatacatcg
     2041 acgaccgaca acaccgtagt gaaatacacg gcgaaataac cccgtcagag cgccctgaaa
     2101 cgacacagcg cgtttttaac accgaggatg accaaaacca tgaccgagat ggaaaaacag
     2161 cttctgagcg ccttagagag cttacagaca agctacgagc aacagcagca ggcgtggcag
     2221 gacagctaca gcagcttgca gcacatgttc gaggctacct cacaggcgct gacgcacagc
     2281 gacagggtgt gtcagcactt gagcagtcag gtggacagct tgcgcgtgca ggtcgagagc
     2341 ttaagcagga acgtcagccg cttgatgcgc tgattgcaca gcacgaccgc gcccgtgcgg
     2401 agaagctgcg cgagcagcag ccggagccgc agaaaaagcc gacccgctat tacggcccct
     2461 cgatgtgacc gcttttctga aattaaaatt aagtgtacta tgtacgccat tgaacacagg
     2521 agacagccgt gagtcacgcg attgagttta tcgagacccc gatgtttacc cgtcagataa
     2581 aacagatcgc cacggatgaa gaactcaggg agctgcaaaa gacgctgatt gagtcaccgg
     2641 ataaaggcga tctcatccag aaaaccggtg ggctgcgcaa aatcagaatg gcgacgggca
     2701 accagggaaa aagcggcagt gcgagggtta tttactttct ggccaccgcc gaggtgattt
     2761 atctggtgat ggcctacccg aaaagcacca aagacagcct gacggacgcg gagaaagccg
     2821 tgctgaagtc gctgacccaa caactgaaag acgaggtgtg acatgagttt ttttgacgag
     2881 ctgaaagcat cgctggaaga agccgttgaa atcaaaaacg gcgtcagaga gcctgcccgc
     2941 gtcacccgtt acgagctggc agacgtgaaa gccatcaggg cacagctgaa cgtatctcag
     3001 agcgagatgg cgaaagtgct ggggaccagc ctcgacacta tcaagagctg ggaaaccgga
     3061 cgccgtaatc cgaccggact ggcggcgaag gtgctggcaa ccatccaggc gaacccgaaa
     3121 ttcttccagg agctggcggc gcactaagcc gttgtgacag aaggattcga caggcgaggc
     3181 cgttcgcgtg taatttaacg gcaacagaaa aaacaaagcc ccggaaatca tgctctactt
     3241 tggcgagcgg acatgataac cagggccagg tcgaaacctt gaaaggatat tagcacatga
     3301 accgtgccag acaacagccc gccataagtg cagggcgctt tgaataacgc agtactcgaa
     3361 cttttcaacg accgcttacc gcacaagccg tacttctcgg atgatttaca ctttggtgta
     3421 cgcattgccg gtaaggaacg cgccattctg gcgaaataca tccagttcaa ccagccgcac
     3481 gccatgttct ggctgggatt cgacgtcgat cgcaccggtg cggccatcga ctggaacgac
     3541 cggaacgcgc ctgcgcccac gctgaccatc accaaccccg acaacggaca cgcgcatctg
     3601 ctgtacgccc tcagaacctc gatacgtacc gcgccggacg gaaaaatgaa gccgctgcgc
     3661 tacgctgccg ctgtggagaa cgcgctacgt aaaaagttag aggctgacgc ggggtattcg
     3721 gggctaatct gcaaaaatcc gaaccatagc cactggagaa ttgccgtatg gcagccggaa
     3781 ctctacacgc tggactggct ggctgacttt ctcgacctga acgcggcgaa cgacaaagaa
     3841 atcgttgccg actatggttt aggccgtaac tgcacgctgt tcgacaaaac ccgcaagtgg
     3901 gcataccgcg ctatccgtca gggctggcct gagtatgacc agtggctgca agcctgttat
     3961 gaacgtgcta cagcctataa ccttcatttt tcttcgcctc ttgacgataa cgaagtaact
     4021 ggaattgcca aaagcatagc taaatggaca agtaaaaatt tttccgaaga ttcattcagg
     4081 gagtttgttt ctcggacaca tacctctgag atccagtcaa tacggggtag taaaagtaag
     4141 ggaggcggaa gaccttctat aggggagccg tggttagaac atggcatcag cagagctaca
     4201 tacttcagga aactaaaaaa aaatgagatt tgatgcgtca ccatttaata tgaactccat
     4261 tctttctgta gaaaaaagat atgagatccc aagaaatcag cgagagttta gctgggagcg
     4321 aattcagctt gaggagcttt gggctgatct tctaagaaat atagtgatgg atgataacgg
     4381 cactataaaa ttacacgagt actttattgg aaccattgtg ctatcaggtg ttgatagtga
     4441 tgatgtttta gaagttgtgg atggacagca acgattgtct gtaataacca tgatgctttc
     4501 tataatatca aggtatttta gaaagaacaa aaatgacaca actgcggaca atatatataa
     4561 aaaatatatc gtaacaataa ataacactct ggatagaaat agtttaaatt ctgatggtga
     4621 gtctgttatt caaaagctaa caaggagcgt tggaggtgag tattttaaaa aaatagttca
     4681 aggcaaggaa gagtctgacg ccaaagcaac gaatgatgaa gaaaagaaaa taagatatgc
     4741 tgttacgttc tttaaaaggg ctcttcgcaa aaaatcatta tgtagcgcca tatttaaaac
     4801 aaatgatgat agttttacga aggctgatta tgacttatgt cttaatgcta tctataaaat
     4861 gataaccaac tatctgtaca tagtcaggat agcggttgat cgaggcgacg atgcatatga
     4921 catatttgaa gttctaaatg ccagaggtat taacctcagt tcaatagacc ttataaagaa
     4981 taaggttttc cagtcttgca ctacaacttt cccagaagat gaagccagaa ggaaatgggt
     5041 tcacatatac gaacagctag gttcagttgg cgagaccatg accgattaca tccgttgttg
     5101 gtggctatct aaatatggat atattggtga agatcagctc tatcgatcat tcaaaagaga
     5161 aattttaaat gaaaatagct tgttaacagc tgattcattt ttagaagaaa tatataatga
     5221 tgtatctctt tatatgagta tggtagctcc atctacaaaa tactggaacc tgtctcacca
     5281 gagacctata ttagacgcct tagcaaatat caacacattt agcgttactg ttccaagacc
     5341 tttcatttta tctcttctca gaacaagaag agataaatca aggcttatga aacagtctga
     5401 gcttattgag acgctagagt tccttgagaa gttccatttt aaatttaatg ctgtatgtcg
     5461 aatgagacct tcaggtattg actcaaaata ttcagttttt gcagtcagag ctgatagagc
     5521 tgtgagcaag gcttcattga aaaacacaat cgatgagaca gttgatttcc tgaaaagaaa
     5581 ggcaccaagc gaaaaggtgt ttaaagactg cttaatgaaa aatatcgagt ataaggacga
//
