LOCUS       NZ_CP100315             3302 bp    DNA     circular CON 30-SEP-2023
DEFINITION  Klebsiella pneumoniae strain 1020 plasmid pColPHAD28_1020, complete
            sequence.
ACCESSION   NZ_CP100315
VERSION     NZ_CP100315.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN29397001
            Assembly: GCF_025118455.1
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  JOURNAL   Unpublished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                   :: 72x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 09/30/2023 03:26:06
            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)                     :: 5,390
            CDSs (total)                      :: 5,267
            Genes (coding)                    :: 5,149
            CDSs (with protein)               :: 5,149
            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)              :: 118
            CDSs (without protein)            :: 118
            Pseudo Genes (ambiguous residues) :: 0 of 118
            Pseudo Genes (frameshifted)       :: 54 of 118
            Pseudo Genes (incomplete)         :: 58 of 118
            Pseudo Genes (internal stop)      :: 27 of 118
            Pseudo Genes (multiple problems)  :: 20 of 118
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP100315.1.
            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="1020"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pColPHAD28_1020"
                     /geo_loc_name="Italy: Rome"
                     /lat_lon="41.53 N 12.30 E"
                     /collection_date="2021-08-23"
                     /collected_by="Policlinico Umberto I Hospital"
     gene            complement(join(1822..3302,1..52))
                     /locus_tag="NKX97_RS26895"
                     /old_locus_tag="NKX97_26215"
     CDS             complement(join(1822..3302,1..52))
                     /locus_tag="NKX97_RS26895"
                     /old_locus_tag="NKX97_26215"
                     /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            1475..1633
                     /locus_tag="NKX97_RS26970"
     CDS             1475..1633
                     /locus_tag="NKX97_RS26970"
                     /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          1294..1774
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.687"
                     /coverage="91.0"
                     /evalue="0.0"
ORIGIN
        1 agatgcatgg cccgctcatt tcaagcactt gtctaacaac actttttttc atagcctcac
       61 cttatttctg tcacactacg ctatttataa cattacacta cgtgtaatgg cgcgcagtct
      121 ttttaaaaaa aagtgactat aaaaaacaat ttaaaatcat atggttaact acttacttta
      181 aattaagcac aaagaaatat cgtctttata attatttaat ccttttaaat cataaagata
      241 gttttgtgac atttttttat cgaactatca gctactccat ttaccataac atccgttatc
      301 agcaccgcct gagaggccct cagagcgttt ctgacgggaa accggcaaaa caggcaacaa
      361 accacccgaa aacccgccag aaacgcacag gctctgtttt tacggcatgc atgagtatgc
      421 gcacaagtgc atagcgcgga aattgacacc attcagccaa ggtaagtcct gtttccggcg
      481 ttcttctact ccgaaaacgg tgaacgggga cgcaatttat tgcgtggccg tgaagcgttg
      541 ccggcgcagc cggaaaaccg gttttcagca cgttcaggaa tccggttcgt cgacggccgg
      601 caatcacgtt atggcaagtc gccggacgac tcaccacacg attcaccggc gactcttcac
      661 tagagtcgta cccagagtcg ccgcgtctaa aaaacaacca aacggggagt cgggtctaga
      721 gtcgggtcgt tattaactta ttgtttttat agttctgagt cgttaccgac tctataacga
      781 ctcgccgggg actctatgac gagtcgtcat agagtcggat ctatataaat aaaatttaaa
      841 aaacgaaatt tcaggaaggt aaaccactga tattaaataa aaatctgcaa aattttaatt
      901 ttgcgtagtg tgtgggtatt tttcgtggtg aggagcgttc agagatctga cgatttttgg
      961 gaaggttcag gaactccccg ggatggccgg acaggaaaac agggactggc tctggatata
     1021 ttttgccata ttcagcgcgg tcttctgttg tttagtcata aggggcctcg gagcgtcagt
     1081 gctcaatgta aaaccagact cttttccgct tcctcgctca ctcagtcgct acgctcctgc
     1141 cgttcggctg cggcgagcgg caggagcgtg cgtagaaacg ctcgagaaaa ccgagcggtc
     1201 gcgtgatgtg gaaaaggaaa ggccgcacag cggccgtttt tccataggct ccgcccccct
     1261 gacaagcatc acgaaatctg acactcaaat cagtggtggc gaaacccgac aggactataa
     1321 agatacctat catttctgat aggcggctcc ctcgtgcgct ctcctgttcc tgcctttcgg
     1381 tttaccggtg tcactccgct gttatggccg cgtttatctc attccacgcc tgacactcag
     1441 ttccgggaag gcagttcgct ccaagctgga ctgtatgcac gaaccccccg ttcagtccga
     1501 ctgctgcgcc tgttccggta actatcgact tgagtccaac ccggaaagac acgacaaaac
     1561 gccactggca gcagccattg gtatctggtt tacggagcgg agaggcgtgt acaagcatac
     1621 acagagttct tgaagtgttg acctgactac ggctacactg gaaggacaga tttggtcact
     1681 gcgctccgtt taagccagtt accacggttc agaaacttgc cggtttcctg aaccttcgaa
     1741 aaaccacctt gccgggtggt tttttcgttt cagagatgga agatacgcct ttcaaagcgc
     1801 catcgtcaag aaacgcagta gctagaaaaa atcgtcctct aactcaaaat caggcattac
     1861 gcctttttta taatcaggtg aaatgacttt tctatataag ttgaacaccc gctttttctt
     1921 gtaaaagaaa tcatccaaat gctcaccaaa caaataatca acatcgatat tcttattatt
     1981 actcttaaaa gagtctaacc tttttaaatc tttgttgtac acattacctg taacccacaa
     2041 ataatggtgg atattctttt tttctaaatt atttatttta tagtaagagt ttatagttgg
     2101 aaccctttct ttcatccaac gcgtaagttc agttgaaggt aagaccttaa catttttgca
     2161 ctctattata taaatatcgt cactactctc taatacaaca tcagcttctg catgcttacc
     2221 atttatctta tactctctat taatgtaaat attaccaaga ccataaaaat tagaaatttg
     2281 cgaggataca aaaagctcaa aaatataccc tctcaaattg ccattctctc cagaaacaga
     2341 ctccagatct ttaaccatct gaagcaactc atctggatgc ttttcaatgg acaaagaacc
     2401 ctgaaccacc ctcgacaacc tggttaagct ttcatcaact ttattaccaa acgcatttgc
     2461 tatagttaca gccagaaccc cctcacttct caacttattg aaggctattt tgccgaaacg
     2521 ccttgcgaaa ataacaaaca ttatcctctg actcgctcga gaagacttag tcatctggac
     2581 ttttcttatg aatgtttctg ctgcagcggt agtaatttca tcacgattaa agccgagaga
     2641 aaaatcacag gcaacgaaac caggcatcag ttttccgccg acatattcag cgagagggga
     2701 aacgtaactt ggagcggtca tatcccattc aaaagagcct acaactggat ttccctcccc
     2761 atcgtatttt gtttttatct gattaaaagc gaccaggcct aaattcctca accaagcttt
     2821 aacaagctcc aatattggtt tgtcaaaaaa ggattcgcaa tttgccattg ttctaatatt
     2881 aacatcgttg gctatgttgt tatttatcag tacgcaatca ccaactccat caatatacac
     2941 agatctaagt atttttgccg aaagtagatt tcttagaact gtttcataac ttaaatgttt
     3001 agcttgtttt ataggagatc cagacacaat cccaaaatct ttcaccttca aataaccgcc
     3061 attatttatt acggcaagta tcgcgtgtga gtaagttgag tttgcttcgt acatgcactt
     3121 ttcgagagct cgccaaaatt tgaaactgcc aaaatcatct tttagataaa tgaatctcct
     3181 gttatggctg aatttcaaaa atggcagctt acctatgtcc gtgcttcgcg agatcatttt
     3241 acgtatcgct tcaggggaca ttgagggatg ttgccactga attctctctg caagatctga
     3301 ag
//
