LOCUS       NZ_CP100311             3302 bp    DNA     circular CON 24-SEP-2023
DEFINITION  Klebsiella pneumoniae strain 1021 plasmid pColPHAD28_1021, complete
            sequence.
ACCESSION   NZ_CP100311
VERSION     NZ_CP100311.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN29397002
            Assembly: GCF_025118435.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3302)
  AUTHORS   Arcari,G., Carattoli,A., Bruno,F., Polani,R., Capitani,V.,
            Menichincheri,G., Sacco,F. and Raponi,G.
  TITLE     Ceftazidime-avibactam resistance in Klebsiella pneumoniae Sequence
            Type 37: a decade of persistence and concealed evolution
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3302)
  AUTHORS   Arcari,G., Carattoli,A., Bruno,F., Polani,R., Capitani,V.,
            Menichincheri,G., Sacco,F. and Raponi,G.
  TITLE     Direct Submission
  JOURNAL   Submitted (28-JUN-2022) Molecular medicine, Sapienza University of
            Rome, Viale di Porta Tiburtina, Rome 00182, Italy
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 62x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/24/2023 04:36:35
            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)                     :: 5,392
            CDSs (total)                      :: 5,269
            Genes (coding)                    :: 5,152
            CDSs (with protein)               :: 5,152
            Genes (RNA)                       :: 123
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 117
            CDSs (without protein)            :: 117
            Pseudo Genes (ambiguous residues) :: 0 of 117
            Pseudo Genes (frameshifted)       :: 54 of 117
            Pseudo Genes (incomplete)         :: 58 of 117
            Pseudo Genes (internal stop)      :: 26 of 117
            Pseudo Genes (multiple problems)  :: 20 of 117
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP100311.1.
            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..3302
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="1021"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pColPHAD28_1021"
                     /geo_loc_name="Italy: Rome"
                     /lat_lon="41.53 N 12.30 E"
                     /collection_date="2021-09-04"
                     /collected_by="Policlinico Umberto I Hospital"
     gene            join(2102..3302,1..332)
                     /locus_tag="NKY02_RS26905"
                     /old_locus_tag="NKY02_26890"
     CDS             join(2102..3302,1..332)
                     /locus_tag="NKY02_RS26905"
                     /old_locus_tag="NKY02_26890"
                     /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_064161748.1"
                     /translation="MKKSVVRQVLEMSGPCISSDLAERIQWQHPSMSPEAIRKMISRST
                     DIGKLPFLKFSHNRRFIYLKDDFGSFKFWRALEKCMYEANSTYSHAILAVINNGGYLKV
                     KDFGIVSGSPIKQAKHLSYETVLRNLLSAKILRSVYIDGVGDCVLINNNIANDVNIRTM
                     ANCESFFDKPILELVKAWLRNLGLVAFNQIKTKYDGEGNPVVGSFEWDMTAPSYVSPLA
                     EYVGGKLMPGFVACDFSLGFNRDEITTAAAETFIRKVQMTKSSRASQRIMFVIFARRFG
                     KIAFNKLRSEGVLAVTIANAFGNKVDESLTRLSRVVQGSLSIEKHPDELLQMVKDLESV
                     SGENGNLRGYIFELFVSSQISNFYGLGNIYINREYKINGKHAEADVVLESSDDIYIIEC
                     KNVKVLPSTELTRWMKERVPTINSYYKINNLEKKNIHHYLWVTGNVYNKDLKRLDSFKS
                     NNKNIDVDYLFGEHLDDFFYKKKRVFNLYRKVISPDYKKGVMPDFELEDDFF"
                     /name="NERD domain-containing protein"
     gene            complement(521..679)
                     /locus_tag="NKY02_RS26980"
     CDS             complement(521..679)
                     /locus_tag="NKY02_RS26980"
                     /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          complement(381..861)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.687"
                     /coverage="91.0"
                     /evalue="0.0"
ORIGIN
        1 atgttaaggt cttaccttca actgaactta cgcgttggat gaaagaaagg gttccaacta
       61 taaactctta ctataaaata aataatttag aaaaaaagaa tatccaccat tatttgtggg
      121 ttacaggtaa tgtgtacaac aaagatttaa aaaggttaga ctcttttaag agtaataata
      181 agaatatcga tgttgattat ttgtttggtg agcatttgga tgatttcttt tacaagaaaa
      241 agcgggtgtt caacttatat agaaaagtca tttcacctga ttataaaaaa ggcgtaatgc
      301 ctgattttga gttagaggac gattttttct agctactgcg tttcttgacg atggcgcttt
      361 gaaaggcgta tcttccatct ctgaaacgaa aaaaccaccc ggcaaggtgg tttttcgaag
      421 gttcaggaaa ccggcaagtt tctgaaccgt ggtaactggc ttaaacggag cgcagtgacc
      481 aaatctgtcc ttccagtgta gccgtagtca ggtcaacact tcaagaactc tgtgtatgct
      541 tgtacacgcc tctccgctcc gtaaaccaga taccaatggc tgctgccagt ggcgttttgt
      601 cgtgtctttc cgggttggac tcaagtcgat agttaccgga acaggcgcag cagtcggact
      661 gaacgggggg ttcgtgcata cagtccagct tggagcgaac tgccttcccg gaactgagtg
      721 tcaggcgtgg aatgagataa acgcggccat aacagcggag tgacaccggt aaaccgaaag
      781 gcaggaacag gagagcgcac gagggagccg cctatcagaa atgataggta tctttatagt
      841 cctgtcgggt ttcgccacca ctgatttgag tgtcagattt cgtgatgctt gtcagggggg
      901 cggagcctat ggaaaaacgg ccgctgtgcg gcctttcctt ttccacatca cgcgaccgct
      961 cggttttctc gagcgtttct acgcacgctc ctgccgctcg ccgcagccga acggcaggag
     1021 cgtagcgact gagtgagcga ggaagcggaa aagagtctgg ttttacattg agcactgacg
     1081 ctccgaggcc ccttatgact aaacaacaga agaccgcgct gaatatggca aaatatatcc
     1141 agagccagtc cctgttttcc tgtccggcca tcccggggag ttcctgaacc ttcccaaaaa
     1201 tcgtcagatc tctgaacgct cctcaccacg aaaaataccc acacactacg caaaattaaa
     1261 attttgcaga tttttattta atatcagtgg tttaccttcc tgaaatttcg ttttttaaat
     1321 tttatttata tagatccgac tctatgacga ctcgtcatag agtccccggc gagtcgttat
     1381 agagtcggta acgactcaga actataaaaa caataagtta ataacgaccc gactctagac
     1441 ccgactcccc gtttggttgt tttttagacg cggcgactct gggtacgact ctagtgaaga
     1501 gtcgccggtg aatcgtgtgg tgagtcgtcc ggcgacttgc cataacgtga ttgccggccg
     1561 tcgacgaacc ggattcctga acgtgctgaa aaccggtttt ccggctgcgc cggcaacgct
     1621 tcacggccac gcaataaatt gcgtccccgt tcaccgtttt cggagtagaa gaacgccgga
     1681 aacaggactt accttggctg aatggtgtca atttccgcgc tatgcacttg tgcgcatact
     1741 catgcatgcc gtaaaaacag agcctgtgcg tttctggcgg gttttcgggt ggtttgttgc
     1801 ctgttttgcc ggtttcccgt cagaaacgct ctgagggcct ctcaggcggt gctgataacg
     1861 gatgttatgg taaatggagt agctgatagt tcgataaaaa aatgtcacaa aactatcttt
     1921 atgatttaaa aggattaaat aattataaag acgatatttc tttgtgctta atttaaagta
     1981 agtagttaac catatgattt taaattgttt tttatagtca ctttttttta aaaagactgc
     2041 gcgccattac acgtagtgta atgttataaa tagcgtagtg tgacagaaat aaggtgaggc
     2101 tatgaaaaaa agtgttgtta gacaagtgct tgaaatgagc gggccatgca tctcttcaga
     2161 tcttgcagag agaattcagt ggcaacatcc ctcaatgtcc cctgaagcga tacgtaaaat
     2221 gatctcgcga agcacggaca taggtaagct gccatttttg aaattcagcc ataacaggag
     2281 attcatttat ctaaaagatg attttggcag tttcaaattt tggcgagctc tcgaaaagtg
     2341 catgtacgaa gcaaactcaa cttactcaca cgcgatactt gccgtaataa ataatggcgg
     2401 ttatttgaag gtgaaagatt ttgggattgt gtctggatct cctataaaac aagctaaaca
     2461 tttaagttat gaaacagttc taagaaatct actttcggca aaaatactta gatctgtgta
     2521 tattgatgga gttggtgatt gcgtactgat aaataacaac atagccaacg atgttaatat
     2581 tagaacaatg gcaaattgcg aatccttttt tgacaaacca atattggagc ttgttaaagc
     2641 ttggttgagg aatttaggcc tggtcgcttt taatcagata aaaacaaaat acgatgggga
     2701 gggaaatcca gttgtaggct cttttgaatg ggatatgacc gctccaagtt acgtttcccc
     2761 tctcgctgaa tatgtcggcg gaaaactgat gcctggtttc gttgcctgtg atttttctct
     2821 cggctttaat cgtgatgaaa ttactaccgc tgcagcagaa acattcataa gaaaagtcca
     2881 gatgactaag tcttctcgag cgagtcagag gataatgttt gttattttcg caaggcgttt
     2941 cggcaaaata gccttcaata agttgagaag tgagggggtt ctggctgtaa ctatagcaaa
     3001 tgcgtttggt aataaagttg atgaaagctt aaccaggttg tcgagggtgg ttcagggttc
     3061 tttgtccatt gaaaagcatc cagatgagtt gcttcagatg gttaaagatc tggagtctgt
     3121 ttctggagag aatggcaatt tgagagggta tatttttgag ctttttgtat cctcgcaaat
     3181 ttctaatttt tatggtcttg gtaatattta cattaataga gagtataaga taaatggtaa
     3241 gcatgcagaa gctgatgttg tattagagag tagtgacgat atttatataa tagagtgcaa
     3301 aa
//
