LOCUS       NZ_CP104799             4686 bp    DNA     circular CON 28-JAN-2024
DEFINITION  Klebsiella pneumoniae strain GX34 plasmid p3, complete sequence.
ACCESSION   NZ_CP104799
VERSION     NZ_CP104799.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN30914361
            Assembly: GCF_026821715.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4686)
  AUTHORS   Zhang,F.
  TITLE     a NDM-4 and OXA-181 co-producing K51-ST16 carbapenem-resistant
            Klebsiella pneumoniae
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4686)
  AUTHORS   Zhang,F.
  TITLE     Direct Submission
  JOURNAL   Submitted (18-SEP-2022) Laboratory of Clinical Microbiology and
            Infectious Diseases, China-Japan Friendship Hospital, No. 2 East
            Yinghua Street, Beijing 100029, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: SPAdes v. 3.13.1
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100.0x
            Sequencing Technology             :: Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/28/2024 03:55:24
            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)                     :: 5,861
            CDSs (total)                      :: 5,731
            Genes (coding)                    :: 5,558
            CDSs (with protein)               :: 5,558
            Genes (RNA)                       :: 130
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 92
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 173
            CDSs (without protein)            :: 173
            Pseudo Genes (ambiguous residues) :: 0 of 173
            Pseudo Genes (frameshifted)       :: 84 of 173
            Pseudo Genes (incomplete)         :: 89 of 173
            Pseudo Genes (internal stop)      :: 14 of 173
            Pseudo Genes (multiple problems)  :: 13 of 173
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP104799.1.
            Bacteria and source DNA available from human.
            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..4686
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="GX34"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p3"
                     /geo_loc_name="China:Guangxi"
                     /collection_date="2020-06"
     gene            complement(539..748)
                     /locus_tag="N7T97_RS28845"
                     /old_locus_tag="N7T97_28850"
     CDS             complement(539..748)
                     /locus_tag="N7T97_RS28845"
                     /old_locus_tag="N7T97_28850"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005227293.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="YdgH/BhsA/McbA-like domain containing protein"
                     /protein_id="WP_009310047.1"
                     /translation="MKSIKTFVAVAALSMMSFGAFAQSVSATASTLDRAEAKIAAQAAE
                     QGASYKITSAQFNNRVHMTAELTK"
                     /name="YdgH/BhsA/McbA-like domain containing protein"
     gene            1136..1318
                     /locus_tag="N7T97_RS28850"
                     /old_locus_tag="N7T97_28855"
     CDS             1136..1318
                     /locus_tag="N7T97_RS28850"
                     /old_locus_tag="N7T97_28855"
                     /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_080882243.1"
                     /translation="MGKELSLNKIYDKNSRYINDSRGHELGKEKKVFDFEVEMIKKRRE
                     DAIRKIIEDSKSLKW"
                     /name="hypothetical protein"
     gene            1331..3058
                     /locus_tag="N7T97_RS28855"
                     /old_locus_tag="N7T97_28860"
     CDS             1331..3058
                     /locus_tag="N7T97_RS28855"
                     /old_locus_tag="N7T97_28860"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001697690.1"
                     /GO_function="GO:0019239 - deaminase activity [Evidence
                     IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="anti-phage dCTP deaminase"
                     /protein_id="WP_227522207.1"
                     /translation="MSLARKLREKRSNPIHSANEDSSGGDSINQITSRQSMDLVIGFCG
                     AVGSGIKSIVDVTEEELDDLGYDVYRIRVSELMQKLFSEWRDDIVTPFDRYHKLQDFGD
                     ALRNKYYPHILSEAVIHEIKIEKGIDTSSKKNKKAFLVDQLKHQDEIELLRMVYQHNFY
                     LLGVIRSEVERKRNLRDEGLSKSEVDIVIHHDRKSESDYGQQTAKAILDSDYFVKNNQG
                     QRAHLKAKVKRFIGLIHGLNGLTPTTYEKGMYAAHSASLQSACLSRQVGAAILDVNGNL
                     ISVGRNDVPKFNGGLYSADDGVNDHRCVYKGGKCYNEVRKLKIKSKISQILMSESACEL
                     GVKLTEDQAEQLADVIYKKTPVSSIIEYSRSIHAEMDAITSLARLGNGGFSDKVLYTTT
                     FPCHNCARHIVAVGITKVVYIEPYEKSLALELHDDAITEVNEHGKVIFESFEGVSPRRY
                     QKFFFSTDERKDSFGNAEKYSTKYKNHIDIQFIDSYLDFENRVVDIFRTNTNIDSGNHV
                     GRTDSTINLSSQPVPPVPPVPPVPPVPPVPPVPPVPPVPPVPPVPPVPPVPPVPPDSK"
                     /name="anti-phage dCTP deaminase"
     gene            complement(3262..3375)
                     /locus_tag="N7T97_RS29335"
     CDS             complement(3262..3375)
                     /locus_tag="N7T97_RS29335"
                     /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_080882241.1"
                     /translation="MHEPPVQSDCCVLSGNYHLESNPVRHAKAPLAAATGN"
                     /name="replication initiation protein"
     gene            3791..3982
                     /locus_tag="N7T97_RS28860"
                     /old_locus_tag="N7T97_28865"
     CDS             3791..3982
                     /locus_tag="N7T97_RS28860"
                     /old_locus_tag="N7T97_28865"
                     /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_023302508.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3982..4383
                     /locus_tag="N7T97_RS28865"
                     /old_locus_tag="N7T97_28870"
     CDS             3982..4383
                     /locus_tag="N7T97_RS28865"
                     /old_locus_tag="N7T97_28870"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /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_009310048.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     Typing          complement(3263..3670)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.355"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 gactccccgt ttggttgttt tttagacgcg gcgactctgg gtacgactct agtgaagagt
       61 cgccggtgaa tcgtgtggtg agtcgtccgg cgacttgcca taacgtgatt gccggccgtc
      121 gacgaacccg attcctgaac gtgctgaaaa ccggttttcc ggctgcgccg gcaacgcttc
      181 acggccacgc aataaattgc gtccccgttc accgttttcg gatggaaaga acgccggaaa
      241 caggacttac tctggctgaa tggcgtgaat tttcgcgcta tgcacttgcg tgcatactca
      301 tgcatgccgt aaaaacagag cctgcgcgtt tctggcgggt tttcgggtgg tttgttgcct
      361 gttttaccgg ttttccgtca gaaacgccct gaggccgttt tagcggtgcg tacaatcatg
      421 cctttatgtt aaataacaga tgcaaaaaag ccccagaagg ggcctgaagg ttttcctgct
      481 aagggacgaa acgggccgcc tcccggcggc ctgttcggca gctccctttg cgaccatctt
      541 atttggtcag ttcagccgtc atgtggacac ggttattgaa ctgagcgctg gtgattttgt
      601 atgacgcacc ttgttcagcg gcctgtgcgg caatttttgc ttcagcacga tccagggtgg
      661 aggcggtagc gctgacgctc tgagcaaaag caccgaaaga catcatggat agagcggcaa
      721 ctgcaacgaa agttttgatg gatttcatgg tcgtattcct taagtgattt tgttctgtat
      781 ggggcgttgt tgccctgatg tgataaatga taggacgacc attagttgat taaaatcgaa
      841 acaatttgcg gatatcattc aaaaaaaaag aacaagaatt gagcgcatca agaccagagg
      901 tttatctctg gattttaggt accaaatgag gtggtggata gaaatgttaa cattgatgat
      961 tttattttaa caaattgaaa aataatggtt agtttggcgt aatctctctt gcttttctct
     1021 tgccgaattt cctaatgttt aggataagaa aaaaaaatct ctatcgatta cgtttcttgg
     1081 ctattgcctg ttataaagat aacagtaaaa tccatgcgtc ttgcaggagg gtgtgatggg
     1141 taaagagcta tctctaaata aaatttatga taagaattct agatatatta atgattctag
     1201 agggcatgag ctgggaaagg aaaagaaagt tttcgatttt gaagttgaaa tgattaaaaa
     1261 aagaagagag gacgctataa ggaagataat tgaggattca aaatcattaa aatggtaagt
     1321 gaggtctttt atgagcctgg ctagaaagtt aagagaaaaa agaagtaatc cgattcatag
     1381 tgctaacgag gactcctctg gaggggatag cataaaccaa ataacctcca gacagtctat
     1441 ggatcttgtt ataggatttt gcggtgctgt tggctcagga ataaagtcaa ttgttgatgt
     1501 gactgaagaa gaactagatg atctaggata tgatgtttat cgcataagag ttagcgagct
     1561 tatgcaaaaa cttttttcag aatggcgtga tgatattgtt actccgtttg atagatatca
     1621 taagctgcaa gattttggtg atgcgttaag aaataaatat tacccacata tactatctga
     1681 agctgtaatc catgaaataa aaatagaaaa aggcattgac acctcaagta aaaaaaacaa
     1741 aaaggctttt ttggtcgatc agttgaagca tcaggatgaa attgaacttt taaggatggt
     1801 ctaccaacat aatttttatt tactaggtgt aattagaagt gaagtagaaa gaaagcgtaa
     1861 tcttagagat gaagggctga gtaagtcaga agtcgatata gttattcatc acgatagaaa
     1921 atcagagagc gattatggtc agcagactgc gaaagctata cttgactctg attattttgt
     1981 taagaataat caaggacaaa gggcgcacct taaggctaag gttaagcgtt ttattggctt
     2041 gatacatggg ctaaatggtt taactccaac cacgtatgaa aaaggtatgt atgcagctca
     2101 ttcagcatct ctgcaatctg catgcctttc tcgtcaagtt ggtgctgcta tattggatgt
     2161 taatgggaat ctgatttccg ttgggcgtaa tgatgtacct aaattcaatg gtgggcttta
     2221 tagtgcggat gatggtgtca atgatcatcg ttgtgtatac aaaggtggta aatgttataa
     2281 tgaagttaga aaactaaaga ttaaaagcaa aatttcacaa atacttatgt cggaaagcgc
     2341 ttgtgaactt ggtgttaaat taacagaaga tcaagcagag caactggctg atgtaatata
     2401 taaaaaaaca ccagtatctt ctattataga gtactctcgc tcaattcatg cagagatgga
     2461 tgctattaca tcattagcta gactaggtaa tggaggtttt tctgataaag ttttatatac
     2521 aaccacattt ccttgtcata actgcgcgag acatattgtc gctgttggaa taacaaaagt
     2581 tgtttatata gagccatatg aaaaaagcct cgctttagaa ttgcatgatg atgctataac
     2641 cgaggtgaat gagcatggga aggttatatt tgaatccttt gaaggtgtat cacctcgtag
     2701 gtatcaaaaa ttcttctttt ctacagatga aaggaaagat agtttcggta acgcagaaaa
     2761 gtactccact aaatataaaa atcacattga tatacagttt attgatagct atttagattt
     2821 cgaaaatcga gtcgttgata tttttagaac taacacaaat attgattctg gcaatcatgt
     2881 cgggagaact gattcgacta ttaatttatc ttcccagccc gtaccgcccg taccgcccgt
     2941 accgcccgta ccgcccgtac cgcccgtacc gcccgtaccg ccagtaccgc cagtaccacc
     3001 agtaccacca gtaccaccag taccaccagt accaccagta ccaccagact cgaaatgaag
     3061 atctgttgac tctgatgtta tacagagctt aaccttgaga cgagaaagaa aaaaaccgcc
     3121 tttgcggggc ggttttttta aggttctaga gtttgcggct ctatgaacca aggtaactgg
     3181 cttagaggag cgcagtcacc aaaacttgtt ctttcagttt agccttaact ggcgcataac
     3241 ttcaagacta actcctctaa atcagttacc ggtggctgct gccagtggtg cttttgcatg
     3301 tcttaccggg ttggactcaa gatgatagtt accggataag acgcagcagt cggactgaac
     3361 ggggggttcg tgcatacagt ccagcttgga gcgaactgcc tacccggaac tgagtgtcag
     3421 gcgtggaatg agacaaacgc ggccataaca gcggaatgac accggtaaac cgaatggcag
     3481 gaacaggaga gcgcacgagg gagccatcag ggggaaacgc ctggtatctt tatagtcctg
     3541 tcgggtttcg ccgccactga tttgagcgtc agattccgtg atgctcgtca ggggggcgga
     3601 gcctatggaa aaacggccgc tgtgcggcct ttccttttcc ccatcacgag accgctcggt
     3661 tttctcgagc ttttacacgc atgctcctgc cgctcgccgc agccgaacgg caggagcgta
     3721 gcgactgagt gagcgaggaa gcggaaaaga gactgttctt acactgagca ctgacgctct
     3781 gaggcttctt atgacgaaac aacagaaaac agcgctgaac atggctaaat tcatccagaa
     3841 tcagtctctg ctcctgctgg agaagcttaa cgagcttgat ctcgatgttg aggccgacct
     3901 ttgtgagaaa ctccacgatg atgcggagca tcttttccgt acactgtcct cgagactgga
     3961 tgaattacag gatggtaact gatggccaga gtgtctatta gtgaggctgc ccgactgacg
     4021 ggtaagagta gaacaacact gcacaggttg attaaagcag gtgacctgtc cacctgtagc
     4081 ggtgaacgca atgcaaaaat ggtagatact tcagagcttt tacgtgtctt tggtcccttt
     4141 gagcaaccga agggtgaaca ccattctgga caggtctctg aacagcgtga tacagcctct
     4201 gctgaccaga gtgaacaggt gattcgtcat ctgaaacagg agattgagca cctgaatacc
     4261 ttacttttgt ccaaggattc gcacattgac agcctgaaac aggccatgct ccttctcgaa
     4321 aatcaccagg caaaattaac tgaatccccg gcgccatggt ggaaattctg gaaaaaatcc
     4381 tgaccccgtc atgcttcagt tttcctctcc ggccatcccg gggagttcct gaaccttccc
     4441 aaaaatcgtc agatctctga acgctcctca ccactaaaaa tacccacacc ccacgcaaaa
     4501 ttaatatttt gcagatttgt atttaatatc agtgggttac tttcctgaaa tttcgttttt
     4561 taaattttat ttatatagat ccgactctat gacgactcgt catagagtcc ccggcgagtc
     4621 gtcatagagt cggtaacgac tcaggactat aaaaacaata agttaataac gacccgactc
     4681 tagaca
//
