LOCUS       NZ_CP138766             4683 bp    DNA     circular CON 23-NOV-2023
DEFINITION  Klebsiella pneumoniae strain 18 plasmid unnamed3, complete sequence.
ACCESSION   NZ_CP138766
VERSION     NZ_CP138766.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN38040196
            Assembly: GCF_033865275.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4683)
  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  JOURNAL   Unpublished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 4683)
  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 14:00:42
            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)                     :: 5,619
            CDSs (total)                      :: 5,494
            Genes (coding)                    :: 5,373
            CDSs (with protein)               :: 5,373
            Genes (RNA)                       :: 125
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 121
            CDSs (without protein)            :: 121
            Pseudo Genes (ambiguous residues) :: 0 of 121
            Pseudo Genes (frameshifted)       :: 51 of 121
            Pseudo Genes (incomplete)         :: 73 of 121
            Pseudo Genes (internal stop)      :: 21 of 121
            Pseudo Genes (multiple problems)  :: 19 of 121
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP138766.1.
            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..4683
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="18"
                     /isolation_source="patient"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="unnamed3"
                     /geo_loc_name="China:Zhejiang"
                     /lat_lon="28.9063884 N 120.1962952 E"
                     /collection_date="2021-04"
                     /collected_by="He Fang"
     gene            join(4424..4683,1..439)
                     /locus_tag="R8545_RS28060"
                     /old_locus_tag="R8545_28060"
     CDS             join(4424..4683,1..439)
                     /locus_tag="R8545_RS28060"
                     /old_locus_tag="R8545_28060"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016947204.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_159205176.1"
                     /translation="MTRTFFLLCTGVFAIAYALYELNHYGVYYPDVSNPEAFTGWKAVT
                     ELGPAILATGIAATAFSLWLFILFFRGSESRRIQREISGYQQALREAEEAHRARQNALI
                     QNHNLETAALRSHYSGAEDVLREAFAQKESLLLQAVQNARKEARKELEEQREALNQRES
                     ILQKKELALETTLEKARKYVAGERHNTVLARLEAEKAEERRRNACATAERRRRKLEKLQ
                     ATGGTAGQKH"
                     /name="hypothetical protein"
     gene            complement(446..850)
                     /locus_tag="R8545_RS28065"
                     /old_locus_tag="R8545_28065"
     CDS             complement(446..850)
                     /locus_tag="R8545_RS28065"
                     /old_locus_tag="R8545_28065"
                     /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_163535629.1"
                     /translation="MAKVSISEAARLTGKSRTTLHRLIKAGELSTCRGERNAKMLDTSE
                     LLRVFGAFAPVSVEQAEEQVSGQRDTVTSDRNEQVIYILKQEIEHLNTLLASRDSHIDS
                     LKQAMLLLENREEKRQNTTRPRAWWRFWQS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(850..1041)
                     /locus_tag="R8545_RS28070"
                     /old_locus_tag="R8545_28070"
     CDS             complement(850..1041)
                     /locus_tag="R8545_RS28070"
                     /old_locus_tag="R8545_28070"
                     /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            1452..1565
                     /locus_tag="R8545_RS28075"
                     /old_locus_tag="R8545_28075"
     CDS             1452..1565
                     /locus_tag="R8545_RS28075"
                     /old_locus_tag="R8545_28075"
                     /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="hypothetical protein"
                     /protein_id="WP_032634168.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPERHAKAPLAAATGN"
                     /name="hypothetical protein"
     gene            2053..2169
                     /locus_tag="R8545_RS28080"
                     /old_locus_tag="R8545_28080"
     CDS             2053..2169
                     /locus_tag="R8545_RS28080"
                     /old_locus_tag="R8545_28080"
                     /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_016947047.1"
                     /translation="MDWISLAIAIALLVVAVYSGISYFREKKTISRTFRRRR"
                     /name="small membrane protein"
     gene            complement(2546..2746)
                     /locus_tag="R8545_RS28085"
                     /old_locus_tag="R8545_28085"
     CDS             complement(2546..2746)
                     /locus_tag="R8545_RS28085"
                     /old_locus_tag="R8545_28085"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016947201.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_016162092.1"
                     /translation="MKLITVDESVVNAIVEYYAQGSEEAHAEGNRMFLRYLHELTGTQR
                     VAVEAARKQSLAAINKGGASL"
                     /name="hypothetical protein"
     gene            3326..3547
                     /locus_tag="R8545_RS28090"
                     /old_locus_tag="R8545_28090"
     CDS             3326..3547
                     /locus_tag="R8545_RS28090"
                     /old_locus_tag="R8545_28090"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016162091.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_016947202.1"
                     /translation="MQFDTAAELAALQAQTRRIRQVRYRPSRLDRYTGELLSLYQAGAS
                     AAELQRWLRARRIKVVLSTVTRWLEKNG"
                     /name="hypothetical protein"
     gene            3540..4427
                     /locus_tag="R8545_RS28095"
                     /old_locus_tag="R8545_28095"
     CDS             3540..4427
                     /locus_tag="R8545_RS28095"
                     /old_locus_tag="R8545_28095"
                     /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_163535632.1"
                     /translation="MAKFASAARQAAGVIKPLQGNILRSVGTVRNYEQGLTRVAEWMKE
                     NRLNHGDLRTLTPAQAITYLEQRGEQVGQKTLDMERQAIQAMMIHVTQTLPAGEHLPVV
                     KSEQAQILSSRAYSLDQVALIAAAQQPANALATAIALAAGLRAHELLTLAPRQERAPDP
                     RPAADSKFAGREGVIYTVQGKGGLVREVLIPSPLAERLEHVRLASPVRVTDRGVFYQSQ
                     YAIGGGQRWSNAFSAASMRTLGWSRGAHGVRHSYAQQRMQELQKLGLVRDMALRTVSQE
                     MGHFRPEITETYLR"
                     /name="site-specific integrase"
     Typing          1090..1565
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="90.871"
                     /coverage="92.0"
                     /evalue="2.7e-180"
ORIGIN
        1 ggcactgagg gaggcagaag aggctcacag agccagacaa aatgccctta ttcagaatca
       61 caacctggag acagcggccc tgcgaagcca ctacagtggt gctgaggatg tactgcggga
      121 agcgtttgcg caaaaagaaa gcctcttgct tcaggcggtg cagaatgccc ggaaagaagc
      181 cagaaaggag ctggaagaac agagggaggc actgaatcag cgcgaatcca tcctgcagaa
      241 aaaggagctg gcgctggaaa caaccctgga gaaggcccgg aaatatgtgg ccggggagcg
      301 gcataacacc gtgctggccc gtctggaagc agagaaagca gaggaaagac ggagaaatgc
      361 ctgcgcgacg gcggaacggc gcagacggaa actggaaaaa ctccaggcca ctggcggaac
      421 agcagggcaa aaacactgag gcatttcagg actgccagaa acgccaccag gcacggggcc
      481 gggtcgtgtt ctgccgcttc tcttcccggt tctccagcaa caacatcgcc tgtttcaggc
      541 tgtcgatatg tgaatctctg gaggcaagga gggtgttcag gtgttcaatt tcctgtttca
      601 gaatgtaaat gacctgttca ttacggtcag aagtgactgt gtcacgctgt ccactgacct
      661 gttcttccgc ctgttcaacg gataccggcg caaaggcacc aaacacccgc aaaagctctg
      721 aagtatcgag cattttcgca ttccgttcac cccgacaggt ggacagttca ccggctttaa
      781 ttaacctgtg cagggttgtc ctgctcttac ccgtcaggcg tgcagcctca ctgatcgaca
      841 ctttcgccat cagtcaccct cctgtagtgc atccagtctg agggacagtg tacggaaaag
      901 atgctccgca tcatcgtgga gtttctcaca aaggtcagcc tccgcatcga gatcaagctc
      961 gttaagcttc tccagcagga gcagggactg attctggatg aatttagcca tgttcagcgc
     1021 agttttctgt tgtttcgtca taaggggcct cagggcgtca gtgctcaatg tcagacgggg
     1081 ctcttttccg cttcctcgct cactcagtcg ctacgctcct gccgttcggc tgcggcgagc
     1141 ggacgggaca cacagaagag tcatcgctat caccaggaag agaagagcct gtggaaaaag
     1201 ccacggcgtt gccgtttttc cataggctcc gcccccctga caagcatcac gaaatctgac
     1261 gctcaaatca gtggtggcga aacccgacag gacttaaaga taccaggcgt ttccccctgg
     1321 tggctccctc gtgcgctctc ctgttcctgc ctttcggttt accggtgtca ttccgctgtt
     1381 atggccgcgt ttatctcatt ccacgcctga cactcagttc cgggaaggca gttcgctcca
     1441 agctggactg tatgcacgaa ccccccgttc agtccgactg ctgcgcctta tccggtaact
     1501 atcgtcttga gtccaacccg gaaagacatg caaaagcgcc actggcagca gccactggta
     1561 actgatttag aggagatagt cttgaagtca tgcgccagtt aaggctaaac taaacgaact
     1621 gttttggtga ctgcgctcct ctaactagcc agttacctcg gttcaaagag ttgctgctct
     1681 gagaaccttc gagaaaaccg ccctgcaagg cggttttttc gtttacagag caagagatta
     1741 cgacgagact gaatgaatct caagatttca tttagcctgc cacccgatca ttcaaagttt
     1801 tggcgtagtt ctgacccgct ccccgtgatt tgttacatac ccaccacagg gcattagttt
     1861 tttttatttt tttgatgata tgtacaaaat cagtggttag gaataatctt agcagcctta
     1921 acaaacacat acaaaaacag cggttatgtt tcatctcacc acaataagta acgacagtat
     1981 catgctaaaa aaagatgata ttatctttat gaaatcataa caggctgttt ttattaaatt
     2041 aatcaggcat ttatggactg gatttcactt gctatcgcca ttgctctact tgttgtagct
     2101 gtctactcag gaatctcata cttcagagaa aaaaaaacaa tcagtcgtac atttaggcgt
     2161 aggcgatagc gccctattta ccataatccc ttcttacgcg caccgcagaa acggcctcag
     2221 ggcgtttctg gtggttaacg ggcaaaaggt ggtggcaagt acaccgaaaa ccgccagaaa
     2281 cgcgcctgat ttattttacg catatgcatg gctatgcaca ccaccgcata gccggtgatt
     2341 tcggccgaga aaagggcccc ggacgttaaa agcataaaag aacgggccat ccaggcccgt
     2401 caaatgagga caactctgta aaaggaccat cgcacctggt gcggtgccgg cgacaagaaa
     2461 aagatagctc atatcagccc ctcaccggag aaaaatattt ccgggccagt gcacagacat
     2521 cagccgtcca taaatgcgat tttaatcaca gggaagcgcc ccccttattt atcgcggcca
     2581 gagactgctt tctggccgcc tcaaccgcca cacgctgtgt tcccgttaac tcgtgcagat
     2641 aacgcaggaa catcctgttt ccctctgcat gcgcctcctc actgccctgt gcgtagtatt
     2701 ccactatcgc gttcaccacg gattcatcca ccgtaatcag cttcattctg tctctccgct
     2761 ttctctgtga caccatcctg gcatcacgac ggtcatcctg gcgtgaaaac ggtgaccggg
     2821 caggcaaatt ttttgtctgt ccggtcaccg ttggcggggt ccggggcggt cagtcccggt
     2881 gttttttatt caggcaatat gagcacctgc gacacccgct atgtacgacg catgaatgcg
     2941 cctgtacata gcgggtgtcg ctattgagcg gagtcaggcg caacatttaa aaaacaacat
     3001 tcacacgcac gaaaaacctg gctagtattt agtcaaacca tgaggaggcg cactctgacg
     3061 cgcacctgcc taccggcagc aggtaaaaca gccgggtccc tccggggata ctgtaccggg
     3121 cagcccaatc cgagaatcct gagaaaacag ctaaaatctg cgagaccggc aatcaggtca
     3181 ggccattccc tggcttaagg gacgttatca gccgcgagca gtccgggctg aaccacgaga
     3241 ggttcgaacg agggcgatcg gcgcatgccg cagtgaccgt taacgtaacg gccactgatg
     3301 ttcttacacc caatccggag cacagatgca atttgatacc gctgccgaac tggccgccct
     3361 gcaggcgcag acccgccgta tccgccaggt ccgctaccgt ccctcccgcc ttgaccgcta
     3421 taccggcgaa ctgctgagcc tgtaccaggc cggggccagt gcagcggagc tgcaacgctg
     3481 gctccgggcc cggcgaatca aggtggtgtt gtccacggtt acccgctggc tggaaaaaaa
     3541 tggctaaatt cgccagcgct gcccgccagg cagctggcgt gataaaacca ctccagggaa
     3601 atattctgcg ctctgtcggc acagtccgga attacgagca gggactgacc cgcgtcgcag
     3661 agtggatgaa agagaaccgg ctcaaccacg gcgatttacg cacactgaca ccggcgcagg
     3721 ccatcaccta cctggagcag cgcggggagc aggtcggcca gaaaacgctc gatatggaac
     3781 gccaggccat ccaggccatg atgatccacg tgacgcagac cctccctgcc ggcgaacacc
     3841 tgccggtggt gaaatcggag caggcacaga tcctgagcag ccgggcctac agcctggacc
     3901 aggtagccct gattgccgca gcacaacagc ccgccaacgc cctggccacc gcgattgccc
     3961 tggccgccgg attacgcgcc catgaactgc tgaccctcgc gccccgccag gagcgtgcac
     4021 cggatccccg tccggcagcg gacagtaaat ttgccggtcg ggagggtgtg atttacaccg
     4081 ttcagggcaa aggcggcctg gtcagggaag tcctgatacc gtcccccctg gctgaacgtc
     4141 tcgagcatgt caggctggcg agcccggtcc gggtgaccga tcgcggcgtg ttttaccaga
     4201 gtcagtacgc cattggcgga ggacagcgct ggtcgaacgc cttcagtgcc gcctccatgc
     4261 gtaccctggg ctggtcacgg ggggcacacg gcgtgcgtca cagctacgcc cagcaacgga
     4321 tgcaggagct gcaaaaactc ggtctggttc gtgatatggc tctgcgcacc gtcagccagg
     4381 aaatgggcca ttttcgtccg gaaatcacgg agacatacct gcgatgacaa gaacgttttt
     4441 tttattgtgt accggtgttt tcgccatcgc gtacgccctg tatgagctga atcactatgg
     4501 cgtttactat ccggacgtca gcaatcctga ggcgtttact ggctggaagg cggtcaccga
     4561 actcggtccc gctatcctgg caacggggat cgcagccaca gcgttctcgc tgtggctgtt
     4621 cattttgttt ttcagaggct cagagtcccg ccggatacag cgcgagataa gcggatatca
     4681 gca
//
