LOCUS       NZ_CP104610             5733 bp    DNA     circular CON 20-JUN-2024
DEFINITION  Klebsiella pneumoniae strain AHM8C161BI plasmid pHNAH8161B-6,
            complete sequence.
ACCESSION   NZ_CP104610
VERSION     NZ_CP104610.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN30667241
            Assembly: GCF_030169265.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5733)
  AUTHORS   He,W., Gao,M., Lv,L., Wang,J., Cai,Z., Bai,Y., Gao,X., Gao,G.,
            Pu,W., Jiao,Y., Wan,M., Song,Q., Chen,S. and Liu,J.H.
  TITLE     Persistence and molecular epidemiology of blaNDM-positive
            Gram-negative bacteria in three broiler farms: A longitudinal study
            (2015-2021)
  JOURNAL   J Hazard Mater 446, 130725 (2023)
   PUBMED   36630875
REFERENCE   2  (bases 1 to 5733)
  AUTHORS   He,W., Gao,M., Lv,L. and Liu,J.-H.
  TITLE     Direct Submission
  JOURNAL   Submitted (06-SEP-2022) College of Veterinary Medicine, South China
            Agricultural University, Wushan, Tianhe District, Guangzhou,
            Guangdong 510642, China
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.7
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200x
            Sequencing Technology             :: Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_030169265.1-RS_2024_06_20
            Annotation Date                   :: 06/20/2024 05:51:25
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 6,218
            CDSs (total)                      :: 6,096
            Genes (coding)                    :: 5,888
            CDSs (with protein)               :: 5,888
            Genes (RNA)                       :: 122
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 208
            CDSs (without protein)            :: 208
            Pseudo Genes (ambiguous residues) :: 0 of 208
            Pseudo Genes (frameshifted)       :: 72 of 208
            Pseudo Genes (incomplete)         :: 138 of 208
            Pseudo Genes (internal stop)      :: 38 of 208
            Pseudo Genes (multiple problems)  :: 32 of 208
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP104610.1.
            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..5733
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="AHM8C161BI"
                     /isolation_source="chicken feces"
                     /db_xref="taxon:573"
                     /plasmid="pHNAH8161B-6"
                     /geo_loc_name="China"
                     /collection_date="2018-11"
     gene            complement(229..630)
                     /locus_tag="N5862_RS30895"
                     /old_locus_tag="N5862_30880"
     CDS             complement(229..630)
                     /locus_tag="N5862_RS30895"
                     /old_locus_tag="N5862_30880"
                     /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_060628044.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVAEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(630..821)
                     /locus_tag="N5862_RS30900"
                     /old_locus_tag="N5862_30885"
     CDS             complement(630..821)
                     /locus_tag="N5862_RS30900"
                     /old_locus_tag="N5862_30885"
                     /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_060628048.1"
                     /translation="MMKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            complement(1588..2262)
                     /locus_tag="N5862_RS30905"
                     /old_locus_tag="N5862_30890"
     CDS             complement(1588..2262)
                     /locus_tag="N5862_RS30905"
                     /old_locus_tag="N5862_30890"
                     /inference="COORDINATES: protein motif:HMM:NF014045.4"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NYN domain-containing protein"
                     /protein_id="WP_001259273.1"
                     /translation="MRTIVYVDGFNFYHGLVKRSGYKWLDLYKLFEEQLLPIRARESQL
                     IQVKFFTAEIKAKFATRGELAHQAQQAYHRALLQIYGEKLQIIKGYYSERQECAMTFNE
                     GYPPSKTDRTTVWKLEEKQTDVRMALEMYRDAIRGEAEQLVLCTNDSDMIPPIEMIKAD
                     RPELKIGIVVPREQDTSRVISSLASLGDWSLPYVSYEALRLALLPDKVPTRRKPILKPN
                     HW"
                     /name="NYN domain-containing protein"
     gene            2610..3026
                     /locus_tag="N5862_RS30910"
                     /old_locus_tag="N5862_30895"
     CDS             2610..3026
                     /locus_tag="N5862_RS30910"
                     /old_locus_tag="N5862_30895"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001283459.1"
                     /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_060628320.1"
                     /translation="MSDQKNNFNLQKQTLESKWGKEALSMGWSAIPTSLFFLQGALNMT
                     PTTFNVLLHLIIHWWKPYDWPHPSQESIAVRMGVSSRTVQRSLQELENYGLLTKIRTSK
                     DNPKYKGRNIYDMSLLVKSLNILTPDLNAKLNEK"
                     /name="helix-turn-helix domain-containing protein"
     gene            3807..4115
                     /locus_tag="N5862_RS30915"
                     /old_locus_tag="N5862_30900"
     CDS             3807..4115
                     /locus_tag="N5862_RS30915"
                     /old_locus_tag="N5862_30900"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012564913.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_060628143.1"
                     /translation="MTEKLKGTASVLHETKTYEELVEKHSVEVANGLLANAINTALPNA
                     GITSNDVAGFSKVTIALRTGEVDLAKTAKEANADAAAVSANIIAGLKASQKSKDEIK"
                     /name="hypothetical protein"
     gene            complement(4308..5000)
                     /locus_tag="N5862_RS30920"
                     /old_locus_tag="N5862_30905"
     CDS             complement(4308..5000)
                     /locus_tag="N5862_RS30920"
                     /old_locus_tag="N5862_30905"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000550475.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF3800 domain-containing protein"
                     /protein_id="WP_071556240.1"
                     /translation="MHLLYVDESGTPSDPTLNHFVLSGISVFEKQTHWIEQEMNAIAAR
                     FNTDDPYERELHGSPMRGGRDGWKNFPFDDRKQAIKDCLTLLTQKHRDIRIFACVVPKG
                     SLGGKDVITESFYQISSRFDMYLSRLHYQGATSRGVAIFDKSSTEKSIQSLARTFKDTG
                     YGYGKLRNFSEVPLFLDSKASRLIQLADLVSYSIFRKFELNDDEFYKIIEHSFDYNNGK
                     VHGLYVAH"
                     /name="DUF3800 domain-containing protein"
     Typing          943..1346
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.103"
                     /coverage="99.0"
                     /evalue="4.61e-167"
ORIGIN
        1 caagtcgtac acgaatcgcc gacgacttgg attcacctta cagaaagtaa tactgcgtaa
       61 tttaataacc cacaaataac tgatattaat gagttatctt caaaatttta attttgcgtg
      121 gggtgtgggt atttttagtg gtgaggtgcg ttcagagatc tgacgatttt tgggaaggtt
      181 caggaactcc ccgggatggc cggagaggaa aactgaagca tgacggggtc aggatttttt
      241 ccagaatttc caccatggcg ccggggattc agttaatttt gcctggtgat tttcaagaag
      301 gagcatggcc tgtttgaggc tgtcaatgtg cgaatccttg gacaaaagta aggtgttcag
      361 gtgttcaatc tcctgtttca gatgacgaat cacctgttca ctctggtcag cagaggctgt
      421 atcacgctgt tcagcgacct gtccagaatg gtgttcaccc ttcggttgtt caaagggacc
      481 aaagacacgt aaaagctctg aagtatctac catttttgca ttgcgttcac cgctacaggt
      541 ggacaggtca cctgctttaa ttaacctgtg cagtgttgtt ctactcttac ccgtcagtcg
      601 ggcagcctca ctaatagaaa ctctggccat cagttaccat cctgtaatgc atccagtctt
      661 gaggacagtg tacggaaaag atgctccgca tcatcgtgga gtttctcaca aaggtcggcc
      721 tcgacatcga gatcaagctc attaagcttc tccagcagga gcagagactg attctggatg
      781 aatttagcca tgttcagcgc tgttttctgt tgtttcatca taagaggcct cagagcgtca
      841 gtgctcagtg tagggatgtt ctcttttccg cttcctcgct cactcagtcg ctatgctcct
      901 gccgttcggc tgcggcgagc ggcaggagca tgcgtgtaaa agctcgagaa aaccgagcgg
      961 tcgcgtgacg gggaaaagga aaggccgctt agcggccgtt tttccatagg ctccgccccc
     1021 ctgacaagca tcacagaagc tgacgctcaa atcagtggtg gcgaaacccg acaggactat
     1081 aaagatatca ggcgtttccc cctgatggct ccctcgtgcg ctctcctgtt cctgccattc
     1141 ggtttaccgg tgtcattccg ctgttatggc cgcgtttatc tcattccacg cctgacactc
     1201 agttccgggt aggcagttcg ctccaagctg gactgtatgc acgaaccccc cgttcagccc
     1261 gactaccacg ttgtcccggt aactatcatc ttgagtccaa cccggaacag acacgaaaaa
     1321 tcgccagtgg cggtagccat tagtaagagg attcacggag cggagtagta gagtgttcta
     1381 cagagttctt gaagtggagg cctgactgcg gctacactgg aaggacagtt ttggtacctg
     1441 cgctccgtga aagccagtta ccttcggaag aaagagttgg tagctcttga ttccggcaaa
     1501 cgaaccaccg ttggtagcgg tggttttttt gtttgcaggg catgagatta cgacgagagt
     1561 aaaaggatca caagaagatc cggctgttta ccagtgattt ggcttcagta ttggtttccg
     1621 tctagtggga accttatctg gtaatagcgc taatctcaaa gcttcgtagg atacatatgg
     1681 caggctccaa tcccctaaac tagccagact actaataact cgactagtat cttgctccct
     1741 tggtactacg attccaattt tcaattcagg tcgatcggct tttatcattt ctattggcgg
     1801 tatcatatcc gaatcgttag tacagagaac caactgctct gcctcaccac gaatcgcatc
     1861 gcgatacatt tctaaagcca ttctaacgtc agtctgcttt tcttctaact tccagaccgt
     1921 tgttctatcc gttttcgatg gaggataccc ctcattgaag gtcatcgcac attcctgacg
     1981 ttctgagtag taccctttga ttatttgtag cttctcgcca taaatctgca gtaatgctcg
     2041 atggtaagct tgctgagcct ggtgagctaa ctcacctcgg gtagcaaatt tagctttgat
     2101 ctcagcagtg aagaacttca cctgaatcaa ctgtgactct cttgctctta tcggaagtag
     2161 ttgttcttca aagagcttat aaaggtccag ccacttatat cccgaacgtt tgaccaatcc
     2221 atggtaaaaa ttgaacccat ctacgtaaac tattgttctc attttatttc acgcataaaa
     2281 aaaccgcctc taagggcggt tttaacaaca aaaactaacg ttagcaaaca gtttaagttg
     2341 tagttcctca gggttaaaac taaccgagag agcggtttca agctcctgaa ggaagacgcg
     2401 taacttaatc gctgcccacc taaagggagg tttagagcct caagggagcc gcgtaactta
     2461 atcgcgctac caagaggtga gtgtagatta agtatagttg aatataatga tattataagc
     2521 gcgctggtgt cgtactaatt atatgaatta atttaccaac ctgctaagct gaagtcttct
     2581 aagaagactt cagcttagca ggttggtata tgtcagatca aaaaaataat tttaaccttc
     2641 aaaaacaaac acttgaatct aaatggggaa aggaagcatt aagcatgggc tggtcagcta
     2701 ttcctacatc acttttcttc ttacagggtg cgctcaatat gacacccaca acattcaatg
     2761 tcttactcca tctaattatc cactggtgga aaccctacga ttggccacat ccctctcagg
     2821 agagcattgc agttagaatg ggtgtttcat caagaacagt gcaacgctca ctccaagaac
     2881 ttgaaaacta cggattgctt acaaaaattc gtacaagtaa ggacaaccct aagtacaaag
     2941 gaagaaacat ttacgatatg tctcttttgg ttaagtcact aaatattctt actcctgacc
     3001 ttaacgccaa actgaacgaa aaataaccgc aaaatacatt taaaatcagg ccaccgtcgt
     3061 agcaggttta ccatttatca ggtctgtatc tcggactccg ccaagatgaa caggggattg
     3121 ccggcacact ctgcactcac cttagatcaa aatttaatca ccacgaaaga tgatctaaga
     3181 tagtgcttta caagcaaaac atcttaataa tatattcatt aaataaaatg aatatttaat
     3241 ggaaagcctt aaatgcctgg aaaaaagtgc cccttctgta acaagctgac cctcttcgga
     3301 aacagctgta cttcttgcaa tgctgtagtg agaacaccac caaacgaagg ccggggcgga
     3361 agaggtaagc aatgtccatt ttgtaagaca atgacactgt tcaaagatgg tacgaatgga
     3421 tctctaaaat gctccatgtg tcagcgtaag ttttccccat cgtaaggggg aaaatgtcac
     3481 acccagtagg aaagcacgta tcgaaaaagc aagaacacga acttaattac tggctaaaaa
     3541 agagggggtt caaagagagt aaacatcact agtgtggctg attgggtgag caaagctagg
     3601 actaggaatg cctagcaatg agtatctcga tgcatgccga attagataaa tactttcaag
     3661 ataacaaagg gttatgggtt gacgaatttg agacaaaatg atctctgtta catctgagat
     3721 aaattccata acgtgggatt tatccattta aaatcaaaac aatatgtaaa atcccacatc
     3781 taaattatca cagacaagag gtttacatga ccgagaaact gaaaggaacg gctagtgttc
     3841 tgcatgaaac caaaacttat gaggaattgg ttgagaagca ttcagtagaa gtcgctaacg
     3901 gcttgctggc aaatgcgatc aatactgctt tgcctaacgc aggaataact tcaaatgacg
     3961 tcgccggatt cagcaaggtg acgatagcct tgcgcacagg agaagttgat ctagccaaaa
     4021 cagcgaaaga agcgaacgct gatgctgcag ctgtttcagc aaatattatt gcgggattga
     4081 aagcatcaca aaagagcaag gatgaaataa agtgattatc agcagggtaa aaagccacct
     4141 gaatggtggc ttttttatgt ccataacggg ctgtactcac tataacatcc gttgtgcgat
     4201 gctaatgaga aaatgcaatg caggcttcag tcgtaggccc tgcatcgatg gaagatagtg
     4261 gctacagcgg catctgaccc ggagacaacc tatccacagc gattcaatta gtgagctacg
     4321 taaagtccgt gaactttacc attattgtag tcaaaggaat gctcaataat cttgtagaac
     4381 tcatcatcat tgagctcaaa cttcctgaaa attgagtacg atacaagatc cgcaagctga
     4441 atcaaccttg acgccttgga atccaaaaac aaaggcactt cagagaagtt acgaagtttt
     4501 ccatatccat atccagtatc tttaaacgta cgagcaagag actgaatact tttctctgtt
     4561 gacgatttat caaaaatggc cacccctcga gatgttgctc cttggtaatg taatcggctc
     4621 aaatacatgt cgaaacgaga cgatatctga taaaaagatt ctgttattac gtcctttcca
     4681 cctaaggatc ccttgggtac aacacacgca aatatacgga tatcccgatg cttttgagtc
     4741 aggagtgtta ggcaatcttt gatcgcttgt ttcctgtcat cgaaaggaaa atttttccag
     4801 ccatctcgcc cacctctcat aggcgaacca tgcaattctc tttcatacgg atcatcagta
     4861 ttaaatctgg ctgcgatagc attcatctct tgctctatcc aatgagtctg cttttcaaac
     4921 actgagatac cagaaaggac aaaatgatta agtgtagggt ctgatggtgt accagactca
     4981 tcaacgtata agagatgcat cgaagattcc ttaaacgaaa aaggccgcgc aaatgcgcgg
     5041 ccttttcata aattaggcaa gccagtgcga taaaaatcgc atacaccgct atgggcagcg
     5101 aactgactca gtgttgagca taacaggcaa acgcatattt accaaaataa tttatacaca
     5161 tatcataatc atgagcaatt aaataacata aattcaatcg gatagttgct tcatcgtcac
     5221 tcttatttac cataacatcc gttatcagca ccgcctgaga ggccctcaga gcgtttctga
     5281 cggaaaaccg gtaaaacagg caacaaacca cccgaaaacc cgccagaaac gcacaggctc
     5341 tgtttttacg gcatgcatga gtatgcgcac aagtgcatag cgcggaaatt gacaccattc
     5401 agccagggga agtcctgttt ccggcgttct tctcctccga aaacggtgaa cggggacgca
     5461 atttattgcg tggccgtgaa gcgttgccgg cgcagccgga aaaccggttt tcagcacgtt
     5521 caggaatcag gttcgtcgac ggccggcaat cacgttatgg caagtcacca gacgactcac
     5581 cacacgattc accggcgatt cgactcgtga cttgactcta gagtcactac ggtcaaaaaa
     5641 acgccaaagc gacgattcga ctctagagtc aagtcgtcat aagttactga tagtgtggag
     5701 tgagtcgtcg atgactctat gacgagtcgt cgg
//
