LOCUS       NZ_CP138788             5455 bp    DNA     circular CON 23-NOV-2023
DEFINITION  Klebsiella pneumoniae strain T24441 plasmid unnamed5, complete
            sequence.
ACCESSION   NZ_CP138788
VERSION     NZ_CP138788.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN38040201
            Assembly: GCF_033869415.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5455)
  AUTHORS   Hao,G.
  TITLE     Identification and global prevalence analysis of Klebsiella spp.
            containing the tmexCD-toprJ gene isolated in Chinese clinics
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5455)
  AUTHORS   Hao,G.
  TITLE     Direct Submission
  JOURNAL   Submitted (06-NOV-2023) 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. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 150x
            Sequencing Technology             :: Illumina NovaSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/22/2023 13:44:41
            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)                     :: 5,873
            CDSs (total)                      :: 5,750
            Genes (coding)                    :: 5,564
            CDSs (with protein)               :: 5,564
            Genes (RNA)                       :: 123
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 186
            CDSs (without protein)            :: 186
            Pseudo Genes (ambiguous residues) :: 0 of 186
            Pseudo Genes (frameshifted)       :: 70 of 186
            Pseudo Genes (incomplete)         :: 126 of 186
            Pseudo Genes (internal stop)      :: 34 of 186
            Pseudo Genes (multiple problems)  :: 39 of 186
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP138788.1.
            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..5455
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="T24441"
                     /isolation_source="patient"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="unnamed5"
                     /geo_loc_name="China:Zhejiang"
                     /lat_lon="28.9063884 N 120.1962952 E"
                     /collection_date="2021"
                     /collected_by="He Fang"
     gene            122..232
                     /locus_tag="R8540_RS29225"
                     /old_locus_tag="R8540_29220"
     CDS             122..232
                     /locus_tag="R8540_RS29225"
                     /old_locus_tag="R8540_29220"
                     /inference="COORDINATES: protein motif:HMM:NF033853.2"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="small membrane protein"
                     /protein_id="WP_139789971.1"
                     /translation="MDWISLAIAIALLVVAVYTGISYYKEKKTISRVFRR"
                     /name="small membrane protein"
     gene            complement(609..809)
                     /locus_tag="R8540_RS29230"
                     /old_locus_tag="R8540_29225"
     CDS             complement(609..809)
                     /locus_tag="R8540_RS29230"
                     /old_locus_tag="R8540_29225"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016162092.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_065813419.1"
                     /translation="MKLITVDESVVNAIVEYYAQGSEEAHAEGNRMFLRYLHELTGTQR
                     VAVEAARKQSLAAINKGRASL"
                     /name="hypothetical protein"
     gene            1373..1594
                     /locus_tag="R8540_RS29235"
                     /old_locus_tag="R8540_29230"
     CDS             1373..1594
                     /locus_tag="R8540_RS29235"
                     /old_locus_tag="R8540_29230"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016947202.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_016162091.1"
                     /translation="MEFDTAAELAALQAQTRRIRQVRYRPSRLDRYTGELLSLYQAGAS
                     AAELQRWLRARRIKVVLSTVTRWLEKNG"
                     /name="hypothetical protein"
     gene            1587..2474
                     /locus_tag="R8540_RS29240"
                     /old_locus_tag="R8540_29235"
     CDS             1587..2474
                     /locus_tag="R8540_RS29240"
                     /old_locus_tag="R8540_29235"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016947203.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="site-specific integrase"
                     /protein_id="WP_319795702.1"
                     /translation="MAKFASAARQAAGVIKPLQGNILRSVGTVRNYEQGLTRVAEWMKE
                     NRLNHGDLRTLTPAQAITYLEQRGEQVGQKTLDMERQAIQAMMIHVTQTLPAGEHLPVV
                     KSEQAQILSSRAYSPDQVALIAAAQQPANALATAIALAAGLRAHELLTLAPRQERAADP
                     RPAADSKFAGREGVIYTVQGKGGLIREVLIPSPLAERLEHVRLASPVRVTDRGVFYQSQ
                     YAIGGGQRWSNAFSAASMRTLGWSRGAHGVRHSYAQQRMQELQKLGLVRDMALRTVSQE
                     MGHFRPEITETYLR"
                     /name="site-specific integrase"
     gene            2471..3169
                     /locus_tag="R8540_RS29245"
                     /old_locus_tag="R8540_29240"
     CDS             2471..3169
                     /locus_tag="R8540_RS29245"
                     /old_locus_tag="R8540_29240"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016162089.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_087771662.1"
                     /translation="MTRTFILLCTGVFAIAYALYELKHMGVYYPDASNPQLFTGWKAVT
                     ELGPAILATGIAATAFSLWLFILFFRSSESRRIQREISGYQQALREAEEAHTARQNALI
                     RDHNMKTETLHSHYCDAANVLREEYAKREKRWRQALQNAREEARQELEEQTEALNQRAS
                     GLLVQEQTLKARMEEVRKYVAGERHNTELARLEAEKAEERRRNACATAERRRRKLEKLQ
                     ATGGTAGQKH"
                     /name="hypothetical protein"
     gene            complement(3176..3580)
                     /locus_tag="R8540_RS29250"
                     /old_locus_tag="R8540_29245"
     CDS             complement(3176..3580)
                     /locus_tag="R8540_RS29250"
                     /old_locus_tag="R8540_29245"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016162088.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="helix-turn-helix domain-containing protein"
                     /protein_id="WP_319795701.1"
                     /translation="MAKVSISEAARLTGKSRTTLHRLIKAGELSTCRGERNAKMLDTSE
                     LLRVFGAFVPVSVEQDGEQVSGQRDTVTSDRNEQVIYILKQEIEHLNTLLASRDSHIDS
                     LKQAMLLLENREEKRQNTTRPRAWWRFWQS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(3580..3771)
                     /locus_tag="R8540_RS29255"
                     /old_locus_tag="R8540_29250"
     CDS             complement(3580..3771)
                     /locus_tag="R8540_RS29255"
                     /old_locus_tag="R8540_29250"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000166328.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Rop family plasmid primer RNA-binding protein"
                     /protein_id="WP_016947206.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSLRLDALQEGD"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(4703..5400)
                     /locus_tag="R8540_RS29260"
                     /old_locus_tag="R8540_29255"
     CDS             complement(join(4703..5151,5151..5400))
                     /locus_tag="R8540_RS29260"
                     /old_locus_tag="R8540_29255"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_086558153.1"
                     /ribosomal_slippage=""
                     /GO_function="GO:0004803 - transposase activity [Evidence
                     IEA]"
                     /note="programmed frameshift; Derived by automated
                     computational analysis using gene prediction method:
                     Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="IS1 family transposase"
                     /protein_id="WP_223216375.1"
                     /translation="MASISIRCPSCSATEGVVRNGKSTAGHQRYLCSHCRKTWQLQFTY
                     TASQPGTHQKIIDMAMNGVGCRATARIMGVGLNTVLRHFKKLRPQSVTSRIQPGSDVIV
                     CAEMDEQWGYVGAKSRQRWLFYAYDRIRRTVVAHVFGERTLATLERLLSLLSAFEVVVW
                     MTDGWPLYESRLKGKLHVISKRYTQRIERHNLNLRQHLARLGRKSLSFSKSVELHDKVI
                     GHYLNIKHYQ"
                     /name="IS1 family transposase"
     Typing          3820..4299
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="87.474"
                     /coverage="91.0"
                     /evalue="6.05e-152"
ORIGIN
        1 caaaaacagc ggttatgttt catctcacca caataagtaa cgacagtatc atgctaaaaa
       61 aagatgatat tatctttatg aaatcataac aggctgtttt tattaaatta atcaggcatt
      121 tatggactgg atttcacttg ctatcgccat tgctctactt gttgtagctg tctacacagg
      181 aatctcatac tacaaagaaa aaaaaacaat cagccgtgta tttaggcgat agcgccctat
      241 ttaccataat cccttcttac gcgcaccgca gaaacggcct cagggcgttt ctggcaggaa
      301 accggtaaaa caggcaacaa accacccgaa aacccgccag aaacgcgcct gatttatttt
      361 acgcatatgc atggctatgc acaccaccgc atagccggtg atttcggccg agaaaagggc
      421 cccggacgtt aaaagcataa aagaacgggc catccaggcc cgtcaaatga ggacaactct
      481 gtaaaaggac cgtcgcacct ggtgcagtgc cggcgacaag aaaaaggtag ctcatatcag
      541 cccctcaccg gagaaaaata tttccgggcc agtgcacaga catcagccgt ccataaatgc
      601 gattttaatc acagggaagc gcgcccctta tttatcgcgg ccagagactg ctttctggcc
      661 gcctcaaccg ccacacgctg tgttcccgtt aactcgtgca gataacgcag gaacatcctg
      721 tttccctctg catgcgcctc ctcactgccc tgtgcgtagt attccactat cgcgttcacc
      781 acggattcat ccaccgtaat cagcttcatt ctgtctctcc gctttctctg tgacaccatc
      841 ctggcatcac gacggtcatc ctggcgtgaa aacggtgacc gggcaggcaa attttttgtc
      901 tgtccggtca ccgttggcgg ggtccggggc ggtcagtccc ggcggttttt attcaggcag
      961 tctgaacccc tgcgacaccc gctatgtacg acgcataaat gcgcctgtac atagcgggtg
     1021 tcgctattga gcggagtcag acgcaacatt taaaaaacaa cattcacacg cacgaaaaac
     1081 ctggctagta tttagtcaaa ccatgagccc gcgcactctg acgcgcacct gcctaccggc
     1141 agcaggtaaa acagccgggt ccctccgggg atactgtacc gggcagccca atccgagaat
     1201 actgagacaa cagcccaaat ctgtcagacc cacaaccggg tcaagtcatt ctctgactaa
     1261 agagacgttg agccgcgagc agtccgggct taaccacgtt acggtttaaa cgagggcgat
     1321 cggcgcaggc cgcagtggat ttccactgat gttcttacac accggagtac agatggaatt
     1381 tgataccgcc gccgaactgg ccgccctgca ggcgcagacc cgccgtatcc gccaggtccg
     1441 ctaccgtccc tcccgccttg accgctatac cggcgaactg ctgagtctgt accaggccgg
     1501 ggccagtgca gcggagctgc aacgctggct ccgggcccgg cgaatcaagg tcgtgctctc
     1561 aaccgtcacc cgctggctgg aaaaaaatgg ctaaattcgc cagcgctgcc cgccaggcgg
     1621 ctggcgtgat aaaaccactc cagggaaata ttctgcgctc tgtcggcaca gtccggaatt
     1681 acgagcaggg actgacccgc gtcgcagagt ggatgaaaga gaaccggctc aaccacggtg
     1741 atttacgcac actgacaccg gcgcaggcca tcacctacct ggagcagcgc ggggagcagg
     1801 tcggccagaa aacgctcgat atggaacgcc aggccatcca ggccatgatg atccacgtga
     1861 cgcagaccct ccctgccggc gaacacctgc cggtggtgaa atcggagcag gcacagatcc
     1921 tgagcagccg ggcctacagc ccggaccagg tagccctgat tgccgcagca caacagcccg
     1981 ccaacgctct ggccaccgcg attgctctgg ccgccggatt acgcgcccat gaactgctga
     2041 ccctcgcgcc ccgccaggag cgagcagcgg atccccgtcc ggcagcggac agtaaatttg
     2101 ccggtcggga gggtgtgatt tacaccgttc agggcaaagg cggcctgatc agggaagtcc
     2161 tgataccgtc ccccctggct gaacgtctgg agcatgtcag gctggcgagc ccggtccggg
     2221 tgaccgatcg cggcgtgttt taccagagtc agtacgccat tggcggaggc cagcgctggt
     2281 cgaacgcttt cagtgccgcc tccatgcgta ccctgggctg gtcacggggg gcacacggcg
     2341 tgcgtcacag ctacgcccag caacggatgc aggagctgca aaaactcggt ctggttcgtg
     2401 atatggccct gcgcaccgtc agccaggaaa tgggccattt tcgtccggaa atcacggaga
     2461 catacctgcg atgacaagaa cgtttatttt attgtgtacc ggtgttttcg ccatcgcgta
     2521 cgccctgtat gagctgaaac atatgggcgt ttactatccg gatgccagta atccgcagct
     2581 gttcactggc tggaaggcgg tcaccgaact cggtcccgca atcctggcta cggggatcgc
     2641 agccacagcg ttctcgctgt ggctgttcat tttgtttttc agaagctcag agtcccgccg
     2701 gatacagcgc gagataagcg gatatcagca ggcactgagg gaggcagaag aggcgcatac
     2761 cgccagacaa aatgccctta tcagggatca caacatgaag acagaaaccc tgcacagtca
     2821 ctattgtgat gcggcgaatg tactgcggga agagtatgcg aaaagagaaa agcgctggcg
     2881 tcaggcgttg cagaatgccc gggaagaagc caggcaggag ctggaggaac agacggaggc
     2941 actgaatcag cgcgcgtccg gcctgctggt acaggagcag acactgaaag ccagaatgga
     3001 ggaagtcaga aagtatgttg ccggggagcg gcataacacc gagctggccc gtctggaagc
     3061 agagaaagca gaggaaagac ggagaaatgc ctgcgcgacg gcggaacggc gcagacggaa
     3121 actggaaaaa ctccaggcca ctggcggaac agcagggcaa aaacactgag gcatttcagg
     3181 actgccagaa acgccaccag gcacggggcc gggtcgtgtt ctgccgcttc tcttcccggt
     3241 tctccagcaa caacatcgcc tgtttcagac tgtcgatatg tgaatctctg gaggcaagga
     3301 gggtgttcag gtgttcaatt tcctgtttca gaatgtaaat gacctgttca ttacggtcag
     3361 aagtgactgt gtcacgctgt ccactgacct gttctccatc ctgttcaacg gataccggca
     3421 caaaggcacc aaacacccgc aaaagctctg aagtatcaag cattttcgca ttccgttcac
     3481 cccgacaggt ggacagttca ccggctttaa ttaacctgtg cagggttgtc ctgctcttac
     3541 ctgtcaggcg tgcagcctca ctgatcgaca ctttcgccat cagtcaccct cctgtagtgc
     3601 atccagtctg agggacagtg tacggaaaag atgctccgca tcatcgtgga gtttctcaca
     3661 aaggtcagcc tccgcatcga gatcaagctc gttaagcttc tccagcagga gcagggactg
     3721 attctggatg aatttagcca tgttcagggc agttttctgt tgtttcgtca taaggggcct
     3781 cagggcgtca gtgctcagtg taaaacctgt ctcttttccg cttcctcgct cactcagtcg
     3841 ctacgctcct gccgttcggc tgcggcgagc ggacggggca cacagacaga agactcatgc
     3901 ccacaatccg aaagaggaaa gggacaaccg gaaaaaagcc acggcgttgc cgtttttcca
     3961 taggctccgc ccccctgaca agcatcacaa aatctgacgc tcaaatcagc ggtggcgaaa
     4021 cccgacagga cttaaagata ccaggcgttt ccccctggtg gctccctcgt gcgctctcct
     4081 gttcctgcct ttcggtttac cggtgtcatt ccgctgttat ggccgcgttt atctcattcc
     4141 acgcctgaca ctcagttccg ggtaggcagt tcgctccaag ctggactgta tgcacgaacc
     4201 ccccgttcag tccgactacc acgctctttt cggtaactat cgtcttgagt ccaacccgaa
     4261 aaggcacgac aaatcgccat tggcggtagc cactggtaaa ggggtgtaca agacataact
     4321 ggtacagagt tcttgaagtt gaagcctaac tacggctaaa ctggaaggac gtatttggtg
     4381 gcagcggtct tgtacaccct gttaccacgg ttcagaagtt ccccaacttg ctgaaccttc
     4441 gaaaaaccgc cctgcaaggc ggttttttcg tttacagagc aagagattac gacgaggctg
     4501 aatgaatctc aagatttcat ttagcctgcc acccgatcat tcaaagtttt ggcgtagttc
     4561 tgacccgctc cccgtgattt gttacatacc caccacaggg cattagtttt tttatttttt
     4621 tgatgatatg tacaaaatca gtggttagga ataatcttag ccgccttaac aaacacatac
     4681 aaaaacaggt aatgactcca acttactgat agtgttttat gttcagataa tgcccgatga
     4741 ccttgtcatg cagctccacc gattttgaga acgacagtga cttccgtccc agccttgcca
     4801 gatgttgtct cagattcagg ttatgtcgct caatgcgctg agtgtaacgc ttgctgataa
     4861 cgtgcagctt tcccttcagg cgtgattcat acagcggcca gccatccgtc atccatacca
     4921 cgacctcaaa ggccgacagc aggctcagaa gacgctccag tgtggccaga gtgcgttcac
     4981 cgaagacgtg cgccacaacc gtcctccgta tcctgtcata cgcgtaaaac agccagcgct
     5041 gacgtgattt agcaccgacg tagccccact gttcgtccat ttcagcgcag acaatcacat
     5101 cactgcccgg ctgtatgcgc gaggttaccg actgcggcct gagtttttta agtgacgtaa
     5161 aaccgtgttg aggccaacgc ccataatgcg ggcggttgcc cggcatccaa caccattcat
     5221 ggccatatca atgattttct ggtgcgtacc gggctgagag gcggtgtaag tgaactgtag
     5281 ctgccatgtt ttacggcaat gagagcagag atagcgctga tgtccggcag tgcttttgcc
     5341 gttacgcacc acgccttcag tagcggagca ggaaggacat ctgatggaaa tggaagccac
     5401 gcaagcacct taaaatcacc atcatacact aaatcagtaa gttggcagca ttacc
//
