LOCUS       NZ_CP099751             4091 bp    DNA     circular CON 29-SEP-2023
DEFINITION  Klebsiella pneumoniae strain 806883-10-2019 plasmid
            p806883-10-2019c, complete sequence.
ACCESSION   NZ_CP099751
VERSION     NZ_CP099751.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN29187369
            Assembly: GCF_025232435.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4091)
  AUTHORS   Fernandez,J.E., Seth-Smith,H.M.B., Nordmann,P., Egli,A.,
            Endimiani,A. and Perreten,V.
  TITLE     Intra and inter-species spread of a novel conjugative
            multidrug-resistant IncC plasmid co-harbouring blaOXA-181 and armA
            in a cystic fibrosis patient
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4091)
  AUTHORS   Fernandez,J.E. and Perreten,V.
  TITLE     Direct Submission
  JOURNAL   Submitted (21-JUN-2022) Institute of Veterinary Bacteriology,
            University of Bern, Laenggassstrasse 122, Bern 3012, Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: MAY-2022
            Assembly Method                   :: Unicycler v. 0.4.9b
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 387x
            Sequencing Technology :: Illumina NextSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/29/2023 07:34:14
            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)                     :: 5,639
            CDSs (total)                      :: 5,518
            Genes (coding)                    :: 5,388
            CDSs (with protein)               :: 5,388
            Genes (RNA)                       :: 121
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 130
            CDSs (without protein)            :: 130
            Pseudo Genes (ambiguous residues) :: 0 of 130
            Pseudo Genes (frameshifted)       :: 56 of 130
            Pseudo Genes (incomplete)         :: 76 of 130
            Pseudo Genes (internal stop)      :: 22 of 130
            Pseudo Genes (multiple problems)  :: 20 of 130
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP099751.1.
            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..4091
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="806883-10-2019"
                     /isolation_source="Rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p806883-10-2019c"
                     /geo_loc_name="Switzerland: Basel"
                     /lat_lon="47.5617 N 7.58339 E"
                     /collection_date="2019"
                     /collected_by="University Hospital Basel"
     gene            115..264
                     /locus_tag="NHF42_RS28125"
                     /old_locus_tag="NHF42_28110"
     CDS             115..264
                     /locus_tag="NHF42_RS28125"
                     /old_locus_tag="NHF42_28110"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017880354.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_017880354.1"
                     /translation="MPSEYDEQLDSTDTQLPGEYDLFDLMAQVTEENLHAPVDSGPPVG
                     REAL"
                     /name="hypothetical protein"
     gene            746..937
                     /locus_tag="NHF42_RS28130"
                     /old_locus_tag="NHF42_28115"
     CDS             746..937
                     /locus_tag="NHF42_RS28130"
                     /old_locus_tag="NHF42_28115"
                     /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_032421723.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDELQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            937..1338
                     /locus_tag="NHF42_RS28135"
                     /old_locus_tag="NHF42_28120"
     CDS             937..1338
                     /locus_tag="NHF42_RS28135"
                     /old_locus_tag="NHF42_28120"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /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_060588945.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQSKSEHHSGQVSEQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            2313..2633
                     /locus_tag="NHF42_RS28140"
                     /old_locus_tag="NHF42_28125"
     CDS             2313..2633
                     /locus_tag="NHF42_RS28140"
                     /old_locus_tag="NHF42_28125"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017134632.1"
                     /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 transcriptional regulator"
                     /protein_id="WP_048333940.1"
                     /translation="MLNKFSSPFELFAKDAVELNMLSLKSKLLIIIAEMIRGEGWSQAA
                     AADKLGVSQPRVSNLMNGHVSKFAIDTLLEMLCRIGFVVDVTFRPHDEESPLHVSVKKA
                     VV"
                     /name="helix-turn-helix transcriptional regulator"
     gene            complement(2659..2979)
                     /locus_tag="NHF42_RS28145"
                     /old_locus_tag="NHF42_28130"
     CDS             complement(2659..2979)
                     /locus_tag="NHF42_RS28145"
                     /old_locus_tag="NHF42_28130"
                     /inference="COORDINATES: protein motif:HMM:NF017757.3"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_048333942.1"
                     /translation="MAQLELKMEKVVEKEFRALENRKVQEAFAVDLEMIMNGLKPLSSS
                     KPLNGLGKGVFELKKNGRPAYRCVYVVKNNTLYVLHVYSKTSDGTPKHHEDTIKKRFKS
                     VK"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     Typing          complement(3527..4051)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="89.225"
                     /coverage="99.0"
                     /evalue="0.0"
ORIGIN
        1 tgttactcca ccgtagcata ttgagcccgt atacactccg ctagtgctac tcgactggtt
       61 cagggctgcg cccagaaacc cgctaacaac ctctcagcta ctggatatca ccccatgcca
      121 tctgaatatg atgaacaact ggattcgact gatacgcagc ttcccggcga atatgacctt
      181 tttgatttaa tggcgcaggt tactgaagag aacctgcatg cccctgtgga ttccgggccg
      241 cctgtcggcc gggaagcgtt atagcttttt tcgcttgccc gcgtacgtgg taatacgccg
      301 gtattacatt ttatttcttt attttcatgt aattacaggt gattgtaata cgttgcgtat
      361 tacataaata aacggagatt tcagttttta ctttttaatt catgcagttg cgatgaaaat
      421 cgcggctgcg ttaggtgtat gaccatttaa gggccaaaaa attatcattc tggccgggtg
      481 atctgcggag gttaaggggc gtcggtgaca aaaaaacgtc attaacgacc tcgttcatgc
      541 tcgcatgaac ggattatttt tccggactac aggtaaacta cagaaagact acaaaagctg
      601 atgacttaat cctgattttt agtgcgatga ctacagataa actacaaaat aactacagga
      661 ttacctcaga tccgttctct gaaccattcg tacatccgac ccccttaccg gttttacact
      721 gagcattgat gctctgaggt cccttatgac gaaacaacag aaaacagcgc tgaacatggc
      781 taaattcatc cagaatcagt ctctgctcct gctggagaag cttaacgagc ttgatctcga
      841 tgctgaggcc gacctttgtg agaaactaca cgatgatgcg gagcatcttt tccgtacact
      901 gtcctcgaga ctggatgaat tacaggatgg taactgatgg ccagagtgtc tattagtgag
      961 gccgcccgac tgacgggtaa gagtagaaca acactgcaca ggttaattaa agcaggtgac
     1021 ctgtccacct gtagcggtga acgcaatgca aaaatggtag atacttcaga gcttttacgt
     1081 gtctttgggc cctttgaaca atcgaagagt gaacatcatt ctggacaggt ctctgaacag
     1141 cgtgatacag cctctgctga ccagagtgaa caggtgattc gtcatctgaa acaggagatt
     1201 gaacacctga acaccttact tttgtccaag gattcgcaca ttgacagcct gaaacaggcc
     1261 atgctccttc ttgaaaatca ccaggcaaaa ttaactgaat ccccggcgcc atggtggaaa
     1321 ttctggaaaa aatcctgatc ccgccatgct tgagttttcc tctccggcca tcccggggag
     1381 ttcctgaacc ttcccaaaaa tcgccagatc tctgaacgct cctcactcta aaaatatcca
     1441 caccccacgc aaaattaaat ttttgcagat aactcattaa tatcagttag ttggttgtta
     1501 ttaaattacg cagtattacc ttctgtaagg tcaatccaag tcgtcggcga ttcgtgtacg
     1561 acttgccgac gactcgtcat agagtcatcg acgactcact ccacactatc agtaacttat
     1621 gacgacttga ctctagagtc gaatcgtcga tttggcgttt tttttgaccg gggtgactct
     1681 agagtcaagt cccgagtcga atcgccggtg aatcgtgtgc taagtcgtcc ggtgacttgc
     1741 catcacgtca ttgccggctg tcgctgaacc ggattcctga acgtgctgaa aacgggtttt
     1801 ccggctgcgc cggcaacgcc tcacggccac gcaataaatt gcgcatccgt tcaccgttat
     1861 cggggtggtt cgtggtggct ttcagggcgt tcatcggatt ttagccgcta aaatcccggc
     1921 caggtatgtc cgtgcatagc catgcagtcg cgccagaatc atcaggcgcg ttttttcacg
     1981 atatggacag ggaaaggtgc cggaaacagg cgggagggcg cagaaacgcg ctgagggcct
     2041 ctgaggcggt gcacgcaacg gatgttatgg taaatccgtt ctaaagcacg atagtttttg
     2101 ccaacataca ctacaaaatt gttgacgaaa ggggttgacg ggatgaagtg aagcgaacta
     2161 taacaagtct tcagtgtcta tatatatact tatatatctt gcactggggc gtgtattgcg
     2221 tataatacag cgcccatgag atgtggattg agtgcttttt gaccactcta ttctaatgaa
     2281 catgcaacgc atagacgaag aggaggattt gtatgctaaa taaatttagc agtccgtttg
     2341 aactctttgc taaagacgca gttgagttga acatgctcag cctgaaatca aagctgctta
     2401 taatcatcgc tgaaatgatc agaggcgagg gttggtcgca agcggctgct gcggataagc
     2461 ttggagttag tcagccccgc gttagtaact taatgaatgg gcatgtatcc aagtttgcca
     2521 ttgatacgct ccttgagatg ctgtgccgca ttggatttgt tgtggatgtg acctttcggc
     2581 cgcatgatga agaaagtcct ttgcatgtga gcgtaaaaaa ggcggttgtg tgagaaccgc
     2641 cttgcgtaat ttaattattt attttactga tttaaaacgt ttttttattg tgtcttcgtg
     2701 atgctttggt gtgccgtccg atgtcttact gtatacgtga aggacgtata gtgtgttgtt
     2761 ttttactaca taaacacatc tgtaagccgg gcggccgttt ttctttagtt caaaaactcc
     2821 ttttcctaat ccatttagtg gctttgatga tgacaacggt ttgagcccgt tcattatcat
     2881 ttcgaggtct acagcaaaag cctcttgcac cttcctgttt tctagtgcgc gaaattcctt
     2941 ctctacaact ttctccattt tcaattctag ttgtgccata aatcctcctg cactcgttta
     3001 gattaaggtg ttcatacata aaccctcgat tgtttagtgt ttgccagagc catgaatttc
     3061 agggtgctct gacccaattt aacctaggaa gtataacctg ggcatattct gaaattaaag
     3121 aggtgacata taaatatttg tataaattag attatttttt cgccgaatgt catttttgcc
     3181 atctcttatg ccggaacatg gctattaaaa tagtggatga aatctgtttt tcttttaaaa
     3241 aaagaagtta tatctaaagg tggttttgcg ttgaggtcgt caaagagggg gaagatcctt
     3301 gacgatcgtt tgggtggcgg cgtagtctag cgacagaaaa gaaaaaaccg cctggggagg
     3361 cggttttttc aacggtttag taggttgggg aacttactaa accaaggtaa ctggctattc
     3421 acggagcgca gataccaaat actgtccttt cagtgtagcc gtagtcaggc cgccacttca
     3481 agaactcttg cacactaaag tgcgtaatca agctccgtga accctgttac caatggctgc
     3541 tgccagtggc gcctcgtcgt gtttttccgg gttggaatca agttgaaagt taccggaaag
     3601 gcgtagcagt cggactgaac ggggggttcg tgcatacagt ccagcttgga gcgaactgcc
     3661 tacccggaac tgagtgtcag gcgtggaatg agataaacgc ggccataaca gcggaatgac
     3721 accggtaaac cgaaaggcag gaacaggaga gcgcacgagg gagccaccag ggggaaacgc
     3781 ctggtatctt tatagtcctg tcgggtttcg ccaccactga tttgagcgtc agatttcgtg
     3841 atgcttgtca ggggggcgga gcctatggaa aaagcgccgc tggcgcggcc tttgttgtgt
     3901 ggcgccttat tccctgaatc tgtggattca tcatgagctt gttgtgtgag tgcaggtaac
     3961 gcccgccgca gccgaacggc aggagcgtag cgactgagtg agcgaggagg cgtcatatcc
     4021 ccgggcttcc attttctccc gtacgccccg ccgctgcact ttcctctgtc acatgaagca
     4081 ctttcataac g
//
