LOCUS       NZ_CP053041             3301 bp    DNA     circular CON 10-JAN-2024
DEFINITION  Klebsiella pneumoniae strain P35 plasmid pP35F, complete sequence.
ACCESSION   NZ_CP053041
VERSION     NZ_CP053041.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14770898
            Assembly: GCF_014524525.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3301)
  AUTHORS   Martins,W.M.B.S., Nicolas,M.F., Yu,Y., Li,M., Dantas,P., Sands,K.,
            Portal,E., Almeida,L.G.P., Vasconcelos,A.T.R.L., Medeiros,E.A.,
            Toleman,M.A., Walsh,T.R., Gales,A.C. and Andrey,D.O.
  TITLE     When KPC- 2, carried by an IncQ1 ubiquitary, wide-host range and
            high copy plasmid, meets the international ST15 Klebsiella
            pneumoniae clone: clinical and molecular description
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3301)
  AUTHORS   Martins,W.M.B.S., Nicolas,M.F., Yu,Y., Li,M., Dantas,P., Sands,K.,
            Portal,E., Almeida,L.G.P., Vasconcelos,A.T.R.L., Medeiros,E.A.,
            Toleman,M.A., Walsh,T.R., Gales,A.C. and Andrey,D.O.
  TITLE     Direct Submission
  JOURNAL   Submitted (29-APR-2020) Medicine, Universidade Federal de Sao Paulo,
            Pedro de Toledo Street, 781, Sao Paulo, SP 04039-032, Brazil
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 30-MAY-2019
            Assembly Method                   :: Unicycler v. v0.4.0
            Assembly Name                     :: P35
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 120.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MiniION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/10/2024 01:36:38
            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)                     :: 5,561
            CDSs (total)                      :: 5,437
            Genes (coding)                    :: 5,238
            CDSs (with protein)               :: 5,238
            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)              :: 199
            CDSs (without protein)            :: 199
            Pseudo Genes (ambiguous residues) :: 0 of 199
            Pseudo Genes (frameshifted)       :: 96 of 199
            Pseudo Genes (incomplete)         :: 109 of 199
            Pseudo Genes (internal stop)      :: 27 of 199
            Pseudo Genes (multiple problems)  :: 30 of 199
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP053041.1.
            Bacteria and source DNA available from Laboratorio Alerta,
            Universidade Federal de Sao Paulo; Pedro de Toledo Street, 781, zip
            code: 04039-032, Brazil.
            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..3301
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="P35"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pP35F"
                     /geo_loc_name="Brazil: Sao Paulo"
                     /lat_lon="23.597500 S 46.643600 W"
                     /collection_date="2015-05"
                     /collected_by="Laboratorio Alerta"
     gene            complement(join(3029..3301,1..1260))
                     /locus_tag="HKJ75_RS27580"
                     /old_locus_tag="HKJ75_28185"
     CDS             complement(join(3029..3301,1..1260))
                     /locus_tag="HKJ75_RS27580"
                     /old_locus_tag="HKJ75_28185"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_017899153.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="NERD domain-containing protein"
                     /protein_id="WP_141416554.1"
                     /translation="MKKSVVRQVLEMSGPCISSDLAERIQWQHPSMSPEAIRKMISRST
                     DIGKLPFLKFSHNRRFIYLKDDFGSFKFWRALEKCMYEANSTYSHAILAVINNGGYLKV
                     KDFGIVSGSPIKQSKHLSYETVLRNLLSAKILRSVYIDGVGDCVLINNNIANDVNIRTM
                     ANCESFFDKPILELVKAWLRNLGLVAFNQIKTKYDGEGNPVVGSFEWDMTAPSYVSPLA
                     EYVGGKLMPGFVACDFSLGFNRDEITTAAAETFIRKVQMTKSSRASQRIMFVIFARRFG
                     KIAFNKLRSEGVLAVTIANAFGNKVDESLTRLSRVVQGSLSIEKHPDELLQMVKDLESV
                     SGENGNLRGYIFELFVSSQISNFYGLGNIYINREYKINGKHAEADVVLESSDDIYIIEC
                     KNVKVLPSTELTRWMKERVPTINSYYKINNLEKKNIHHYLWVTGNVYNKDLKRLDSFKN
                     NNKNIDVDYLFGEHLDDFFYKKTRVFNLYRKVISPDYKKGVMPDFELEDDFF"
                     /name="NERD domain-containing protein"
     gene            2682..2840
                     /locus_tag="HKJ75_RS28110"
                     /old_locus_tag="HKJ75_28195"
     CDS             2682..2840
                     /locus_tag="HKJ75_RS28110"
                     /old_locus_tag="HKJ75_28195"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001403044.1"
                     /translation="MHEPPVQSDCCACSGNYRLESNPERHDKTPLAAAIGIWFTERRGV
                     YKHTQSS"
                     /name="hypothetical protein"
     Typing          2501..2981
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.687"
                     /coverage="91.0"
                     /evalue="0.0"
ORIGIN
        1 agttggaacc ctttccttca tccaacgcgt aagttcagtt gaaggtaaga ccttaacatt
       61 tttgcactct attatataaa tatcgtcact actctctaat acaacatcag cttctgcatg
      121 cttaccattt atcttatact ctctattaat ataaatatta ccaagaccat aaaaattaga
      181 aatttgcgag gatacaaaaa gctcaaaaat ataccctctc aaattgccat tctctccaga
      241 aacagactcc agatctttaa ccatctgaag caactcatct ggatgctttt caatggacaa
      301 agaaccctga accaccctcg acaacctggt taagctttca tcaactttat taccaaacgc
      361 atttgctata gttacagcca gaaccccctc acttctcaac ttattgaagg ctattttgcc
      421 gaaacgcctt gcgaaaataa caaacattat cctctgactc gctcgagaag acttagtcat
      481 ctggactttt cttatgaatg tttctgctgc agcggtagta atttcatcac gattaaagcc
      541 gagagaaaaa tcacaggcaa cgaaaccagg catcagtttt ccgccgacat attcagcgag
      601 aggggaaacg taacttggag cggtcatatc ccattcaaaa gagcctacaa ctggatttcc
      661 ctccccatcg tattttgttt ttatctgatt aaaagcgact aggcctaaat tcctcaacca
      721 agctttaaca agctccaata ttggtttgtc aaaaaaggat tcgcaatttg ccattgttct
      781 aatattaaca tcgttggcta tgttgttatt tatcagtacg caatcaccaa ctccatcaat
      841 atacacagat ctaagtattt ttgccgaaag tagatttctt agaactgttt cataacttaa
      901 atgtttagat tgttttatag gagatccaga cacaatccca aaatctttca ccttcaaata
      961 accgccatta tttattacgg caagtatcgc gtgtgagtaa gttgagtttg cttcgtacat
     1021 gcacttttcg agagctcgcc aaaatttgaa actgccaaaa tcatctttta gataaatgaa
     1081 tctcctgtta tggctgaatt tcaaaaatgg cagcttacct atgtccgtgc ttcgcgagat
     1141 cattttacgt atcgcttcag gggacattga gggatgttgc cactgaattc tctctgcaag
     1201 atctgaagag atgcatggcc cgctcatttc aagcacttgt ctaacaacac tttttttcat
     1261 agcctcacct tatttctgtc acactacgct atttataaca ttacactacg tgtaatggcg
     1321 cgcagtcttt ttaaaaaaag tgactataaa aaacaattta aaatcatatg gttaactact
     1381 tactttaaat taagcacaaa gaaatatcgt ctttatgatt atttaatcct tttaaatcat
     1441 aaagatagtt ttgtgacatt tttttatcga actatcagct actccattta ccataacatc
     1501 cgttatcagc accgcctgag aggccctcag agcgtttctg acgggaaacc ggcaaaacag
     1561 gcaacaaacc acccgaaaac ccgccagaaa cgcacaggct ctgtttttac ggcatgcatg
     1621 agtatgcgca caagtgcata gcgcggaaat tgacaccatt cagccaaggt aagtcctgtt
     1681 tccggcgttc ttctactccg aaaacggtga acggggacgc aatttattgc gtggccgtga
     1741 agcgttgccg gcgcagccgg aaaaccggtt ttcagcacgt tcaggaatcc ggttcgtcga
     1801 cggccggcaa tcacgttatg gcaagtcgcc ggacgactca ccacacgatt caccggcgac
     1861 tcttcactag agtcgtaccc agagtcgccg cgtctaaaaa acaaccaaac ggggagtcgg
     1921 gtctagagtc gggtcgttat taacttattg tttttatagt tctgagtcgg taacgactct
     1981 ataacgactc gccggggact ctatgacgag tcgtcataga gtcggatcta tataaataaa
     2041 atttaaaaaa cgaaatttca ggaaggtaaa ccactgatat taaataaaaa tctgcaaaat
     2101 tttaattttg cgtagtgtgt gggtattttt cgtggtgagg agcgttcaga gatctgacga
     2161 tttttgggaa ggttcaggaa ctccccggga tggccggaca ggaaaacagg gactggctct
     2221 ggatatattt tgccatattc agcgcggtct tctgttgttt agtcataagg ggcctcggag
     2281 cgtcagtgct caatgtaaaa ccagactctt ttccgcttcc tcgctcactc agtcgctacg
     2341 ctcctgccgt tcggctgcgg cgagcggcag gagcgtgcgt agaaacgctc gagaaaaccg
     2401 agcggtcgcg tgatgtggaa aaggaaaggc cgcacagcgg ccgtttttcc ataggctccg
     2461 cccccctgac aagcatcacg aaatctgaca ctcaaatcag tggtggcgaa acccgacagg
     2521 actataaaga tacctatcat ttctgatagg cggctccctc gtgcgctctc ctgttcctgc
     2581 ctttcggttt accggtgtca ctccgctgtt atggccgcgt ttatctcatt ccacgcctga
     2641 cactcagttc cgggaaggca gttcgctcca agctggactg tatgcacgaa ccccccgttc
     2701 agtccgactg ctgcgcctgt tccggtaact atcgacttga gtccaacccg gaaagacacg
     2761 acaaaacgcc actggcagca gccattggta tctggtttac ggagcggaga ggcgtgtaca
     2821 agcatacaca gagttcttga agtgttgacc tgactacggc tacactggaa ggacagattt
     2881 ggtcactgcg ctccgtttaa gccagttacc acggttcaga aacttgccgg tttcctgaac
     2941 cttcgaaaaa ccaccttgcc gggtggtttt ttcgtttcag agatggaaga tacgcctttc
     3001 aaagcgccat cgtcaagaaa cgcagtagct agaaaaaatc gtcctctaac tcaaaatcag
     3061 gcattacgcc ttttttataa tcaggtgaaa tgacttttct atataagttg aacacccgcg
     3121 ttttcttgta aaagaaatca tccaaatgct caccaaacaa ataatcaaca tcgatattct
     3181 tattattatt cttaaaagag tctaaccttt ttaaatcttt gttgtacaca ttacctgtaa
     3241 cccacaaata atggtggata ttcttttttt ctaaattatt tattttatag taagagttta
     3301 t
//
