LOCUS       NZ_AP023342             4167 bp    DNA     circular CON 28-NOV-2023
DEFINITION  Klebsiella pneumoniae strain MH15-269M plasmid pMH15-269M_5,
            complete sequence.
ACCESSION   NZ_AP023342
VERSION     NZ_AP023342.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMD00141414
            Assembly: GCF_011764365.2
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1
  AUTHORS   Hirabayashi,A. and Suzuki,M.
  TITLE     Molecular epidemiology of tigecycline non-susceptible
            Enterobacteriaceae
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4167)
  AUTHORS   Hirabayashi,A. and Suzuki,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (28-JUL-2020) Contact:Aki Hirabayashi National Institute
            of Infectious Diseases, AMR Research Center; 4-2-1 Aobacho,
            Higashimurayama, Tokyo 189-0002, Japan
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8.0
            Genome Coverage                   :: 168x
            Sequencing Technology             :: Illumina HiSeq4000; ONT MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/28/2023 10:45:35
            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)                     :: 5,947
            CDSs (total)                      :: 5,823
            Genes (coding)                    :: 5,676
            CDSs (with protein)               :: 5,676
            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)              :: 147
            CDSs (without protein)            :: 147
            Pseudo Genes (ambiguous residues) :: 0 of 147
            Pseudo Genes (frameshifted)       :: 62 of 147
            Pseudo Genes (incomplete)         :: 82 of 147
            Pseudo Genes (internal stop)      :: 28 of 147
            Pseudo Genes (multiple problems)  :: 22 of 147
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            AP023342.1.
            Annotated at DFAST https://dfast.nig.ac.jp/
            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..4167
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="MH15-269M"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pMH15-269M_5"
                     /geo_loc_name="Viet Nam:Hanoi"
                     /lat_lon="21.0277 N 105.8341 E"
                     /collection_date="2015"
     gene            complement(93..335)
                     /locus_tag="HRS02_RS29500"
     CDS             complement(93..335)
                     /locus_tag="HRS02_RS29500"
                     /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_098963735.1"
                     /translation="MHSAEIHTIQPGEVLFPAFFSSENGERGRNLLRGREALPAQPENR
                     FSAPSGIGFVDGRQSRYGKSPDDSPHDSPAIRIVN"
                     /name="hypothetical protein"
     gene            complement(701..1333)
                     /locus_tag="HRS02_RS29505"
                     /old_locus_tag="VNKP15269_C57590"
     CDS             complement(701..1333)
                     /locus_tag="HRS02_RS29505"
                     /old_locus_tag="VNKP15269_C57590"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000804504.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF3226 domain-containing protein"
                     /protein_id="WP_012579086.1"
                     /translation="MKDINNSKKIIFVEGDDDFHFLCNLLEIQGITDVFVEKINGKSKL
                     KQALRAFKNIDSFDEKESIFIILDADTSFSDTERSIIATLRELQISSPSSHNEIAMNGN
                     TKISFFIMPGKDKQGAIEDLIIEHASTRALYEYIIEFFEKIKNNKDDISASDKEYTYPT
                     NEKKAKVQVYLSCNRESDSRIGISMKNGIINTADNCFDEIKDFISKI"
                     /name="DUF3226 domain-containing protein"
     gene            complement(1333..2448)
                     /locus_tag="HRS02_RS29510"
                     /old_locus_tag="VNKP15269_C57600"
     CDS             complement(1333..2448)
                     /locus_tag="HRS02_RS29510"
                     /old_locus_tag="VNKP15269_C57600"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019405083.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ATP-binding protein"
                     /protein_id="WP_012579087.1"
                     /translation="MIKEISLKNFKCFNELYLKQLKTLNIIAGKNNYGKTSILDAIFCF
                     YDVKNPAVLLNIQAFRKEMAEINKNKPFWVSYFHDMDTSQKMSIVIRDERSEVTQTYET
                     ETNQRLESSLSLNVDTVLSNQNIPRQTIGSQATVNSLKINVTETPNAKNRVSNKLFSMQ
                     LKEDGVEIKSEIKNERDGINYKFKTATIITTSRKINKEATITNVSSLLTQKRKKDILEN
                     LKKIDDRIVDIAISAIGNNKEIYLDIGFSELNEISMLGEGISRALSFISSVLVQENSII
                     LIDEIENGIHYSVIKDIIKSLISSAKQNNNQIFATTHSQDVIRAINEIDSKNEDIAYIR
                     LGREKNSLKPTAVQFNMDDFSYSVENDWEVR"
                     /name="ATP-binding protein"
     gene            complement(2793..2906)
                     /locus_tag="HRS02_RS29525"
                     /pseudo=""
     CDS             complement(2793..2906)
                     /locus_tag="HRS02_RS29525"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="internal stop; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /name="replication initiation protein"
     gene            3322..3513
                     /locus_tag="HRS02_RS29515"
                     /old_locus_tag="VNKP15269_C57610"
     CDS             3322..3513
                     /locus_tag="HRS02_RS29515"
                     /old_locus_tag="VNKP15269_C57610"
                     /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_004187666.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            3513..3914
                     /locus_tag="HRS02_RS29520"
                     /old_locus_tag="VNKP15269_C57620"
     CDS             3513..3914
                     /locus_tag="HRS02_RS29520"
                     /old_locus_tag="VNKP15269_C57620"
                     /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_012579088.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSGQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     Typing          complement(2794..3201)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.399"
                     /coverage="99.0"
                     /evalue="5.92e-171"
ORIGIN
        1 tgaatcacgc tttattatca tattgttatg atgaatcgac tcttgattca attcatcact
       61 ttgggtgttt tttgctcatg gtgactcttg attcaattca cgattcgaat cgccggtgaa
      121 tcgtgtggtg agtcgtccgg cgacttgcca taacgtgatt gccggccgtc gacgaacccg
      181 attcctgaag gtgctgaaaa ccggttttcc ggctgcgccg gcaacgcttc acggccacgc
      241 aataaattgc gtccccgttc accgttttcg gaggagaaga acgccggaaa caggacttcc
      301 cctggctgaa tggtgtgaat ttccgcgcta tgcacttgcg cgcatactca tgcatgccgt
      361 aaaaacagag cctgcgcgtt tctggcgggt tttcgggtgg tttgttgcct gttttaccgg
      421 tttcccgtca gaaacgtcct gagtccgttt tagcggtgcg tacaattatg attttatgtt
      481 aaattgtttt aagtgaatag agagaatata acttaaggga gcatcttgtg ctgggtcttt
      541 tacattagat ctgcacaatc attgttttgg catctggtga tgtctttagg acgtttgaga
      601 ttgctgataa ctaaagtgta tgatgctttc tatacgttat ccggcgttta ataacaccct
      661 ggtgataagc cagcccgtga agggctggct tgatttggat ttatattttt gaaataaaat
      721 cttttatttc atcaaagcaa ttgtctgctg tgtttattat tccatttttc atggatattc
      781 ctattcttga gtcggattct ctattgcagc taagatagac ttgtacctta gctttttttt
      841 cgtttgttgg ataagtgtac tctttgtcac tcgctgagat gtcatcttta ttatttttaa
      901 ttttttcgaa aaattctatt atgtattcat ataacgctcg agtgcttgcg tgttcaatta
      961 tcagatcttc aatggcacct tgcttgtctt ttcctggcat tataaagaaa gaaatttttg
     1021 tattgccatt catagctatc tcgttatgcg agctggggga ggagatttgt agttctcgca
     1081 atgtggcaat tattgatctt tctgtgtcag aaaatgatgt gtcagcatct aatataataa
     1141 aaatactttc tttttcatcg aaagaatcaa tgtttttgaa tgctctaagt gcttgtttta
     1201 attttgattt tccatttatt ttttcgacaa aaacatcggt aatgccttgt atttcaagta
     1261 ggttgcatag aaaatgaaaa tcatcatcac cctcaacgaa aatgatcttt ttgctattat
     1321 ttatgtcttt cattatctta cctcccagtc gttctcaact gagtaggaga aatcatccat
     1381 attgaattgt acggctgttg gttttaggga gttcttttct cttcctagtc taatataagc
     1441 gatatcttca tttttgctat ctatttcgtt tattgctcgt atcacatctt gactatgagt
     1501 tgttgcaaat atttgattgt tgttttgttt tgcagatgaa attaatgatt ttattatgtc
     1561 tttaattact gagtaatgta ttccgttctc gatttcatca ataagaataa ttgagttttc
     1621 ctgtaccagc actgagctga taaaagataa tgctcgactg ataccctcgc caagcattga
     1681 tatttcattt agctcactaa atccaatgtc taaatatatt tccttattgt tacctatcgc
     1741 agatattgct atatctacaa ttctgtcatc tatttttttt aagttttcta gtatgtcttt
     1801 tttccttttt tgtgttagta ggctagatac atttgtaatt gttgcctctt tgtttatctt
     1861 tctggatgtt gttattattg ttgctgtctt aaatttataa ttaatcccat ccctttcgtt
     1921 ttttatttcg gattttattt ctacgccatc ttctttcaat tgcatagaga aaagcttatt
     1981 ggaaaccctg tttttcgcat tgggtgtctc ggtcacattt atttttaaag agtttactgt
     2041 ggcctgagaa ccgatagttt gacgaggtat gttttggtta gatagtacgg tgtcaacgtt
     2101 tagagacaaa cttgattcta atctctgatt tgtttctgtt tcatatgttt gtgttacttc
     2161 agagcgttca tctcgaatga ctatggacat cttttgtgat gtgtccatat catgaaagta
     2221 actaacccaa aatggcttgt ttttgtttat ttctgccatt tcttttctga atgcttgaat
     2281 gtttaacaaa acagccgggt tttttacatc ataaaaacaa aaaatagcat ccagtataga
     2341 tgttttcccg tagttgtttt tcccagctat gatatttaaa gtctttaatt gctttagata
     2401 tagctcattg aagcatttga agttctttaa acttatttcc tttatcatga tagcctctgt
     2461 tcgtgttttt gttatatgcc atacgatttg ttagtacctt aataaaatgt acagctttca
     2521 ttgtgattag ctagacttta tgtcaaagat taactttgat tgcttgtgtt ttaatcgatt
     2581 ttttttactt tcttcttgag attatctggc agcagccgta agcttccggc tgtgaacgaa
     2641 aaaaaccgcc ttggcgggcg gttttttcga aaggttcagt agagttggcg ctctatgaac
     2701 cgaggtaact ggcttaaagg gagcgcagtc accaaaactg ttcgtttagt ttagctttaa
     2761 ctggcgtata acttcaagac taactcccta aatcagttac cagtggctgc tgccagtggc
     2821 gctttgtcgt gtctttccgg gttggactca agacgatagt taccggatta ggcgcagcag
     2881 tcggactgaa cggggggttc gtgcatacag tccagcttgg agcgaactgc ctacccggaa
     2941 ctgagtgtca ggcgtggaat gagacaaacg cggccataac agcggaatga caccggtaaa
     3001 ccgaaaggca ggaacaggag agcgcacgag ggagccatca gggggaaacg cctggtatct
     3061 ttatagtcct gtcgggtttc gccaccactg atttgagcgt cagattccgt gatgctcgtc
     3121 aggggggcgg agcctatgga aaaacggccg ctgtgcggcc tttccttctt tcctccatgc
     3181 gattactcgg ttttctcgag cgtttctacg catgctcctg ccgctcgccg cagccgaacg
     3241 gcaggagcgt agcgactgag tgagcgagga agcggaaaag aggagatccc tacactgacc
     3301 actgacgctc tgaggcctct tatgacgaaa caacagaaaa cagcgctgaa catggctaaa
     3361 ttcatccaga atcagtctct gctcctgctg gagaagctta acgagcttga tctcgatgtc
     3421 gaggccgacc tttgtgagaa actccacgat gatgcggagc atcttttccg tacactgtcc
     3481 tcgagactgg atgcattaca ggatggtaac tgatggccag agtgtctatt agtgaggctg
     3541 cccgactgac gggtaagagt agaacaacac tgcacaggtt aattaaagca ggtgacctgt
     3601 ccacctgtag cggtgagcgc aatgcaaaaa tggtagatac ttcagagctt ttacgtgtct
     3661 ttggcccctt tgagcaaccg aagggtgaac accattctgg acaggtctct ggacagcgtg
     3721 atacagcctc tgctgaccag agtgaacagg tgatccgtca tctgaaacag gagattgaac
     3781 acctgaacac cttacttttg tccaaggatt cgcacattga cagcctgaaa caggccatgc
     3841 tccttcttga aaatcaccag gcaaaattaa ctgaatcccc ggcgccatgg tggaaattct
     3901 ggaaaaaatc ctgaccccgt catgcttcag ttttcctctc cggccatccc agggagttcc
     3961 tgaaccttcc caaaaatcgt cagatctctg aacgctcctc accactaaaa atacccacac
     4021 cccacgcaaa attaaaattt tgcagattcc ttatttacaa caatgggtta atgaaaaata
     4081 aatgtgcggt gatgtgttac aaagtgcaga tccaagtcgt ggacgactct atggcgaatc
     4141 gctgacgaat tgcccacgat tcatatg
//
