LOCUS       NZ_CP083041             2880 bp    DNA     circular CON 10-FEB-2024
DEFINITION  Klebsiella pneumoniae strain 4906.28 plasmid p5-4906.28, complete
            sequence.
ACCESSION   NZ_CP083041
VERSION     NZ_CP083041.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN21016535
            Assembly: GCF_021137855.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 2880)
  AUTHORS   Campos-Madueno,E.I. and Endimiani,A.
  TITLE     A collection of hybrid assemblies of carbapenemase-producing
            Klebsiella pneumoniae clinical isolates from Switzerland
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2880)
  AUTHORS   Campos-Madueno,E.I. and Endimiani,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (02-SEP-2021) Institute for Infectious Diseases,
            University of Bern, Friedbuehlstrasse 51, Bern 3001, Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 359.2643x
            Sequencing Technology :: Illumina NovaSeq and Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/10/2024 03:10:51
            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)                     :: 5,759
            CDSs (total)                      :: 5,635
            Genes (coding)                    :: 5,500
            CDSs (with protein)               :: 5,500
            Genes (RNA)                       :: 124
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 90
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 135
            CDSs (without protein)            :: 135
            Pseudo Genes (ambiguous residues) :: 0 of 135
            Pseudo Genes (frameshifted)       :: 54 of 135
            Pseudo Genes (incomplete)         :: 82 of 135
            Pseudo Genes (internal stop)      :: 17 of 135
            Pseudo Genes (multiple problems)  :: 14 of 135
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP083041.1.
            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..2880
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="4906.28"
                     /isolation_source="Tracheobronchial"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p5-4906.28"
                     /geo_loc_name="Switzerland"
                     /lat_lon="46.947928 N 7.422277 E"
                     /collection_date="2013"
                     /collected_by="Institute for Infectious Diseases (IFIK),
                     University of Bern, Friedbuehlstrasse 51, 3001 Bern,
                     Switzerland"
     gene            join(2735..2880,1..46)
                     /locus_tag="K9F35_RS28685"
                     /old_locus_tag="K9F35_28635"
     CDS             join(2735..2880,1..46)
                     /locus_tag="K9F35_RS28685"
                     /old_locus_tag="K9F35_28635"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001041614.1"
                     /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_001041614.1"
                     /translation="MNKQQKTAVNMAKFIQDQSLLLLDRLNELDLDHEADFCEKLHEDA
                     ERLYRSLSARLNEQQDGA"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            1269..1943
                     /locus_tag="K9F35_RS28690"
                     /old_locus_tag="K9F35_28640"
     CDS             1269..1943
                     /locus_tag="K9F35_RS28690"
                     /old_locus_tag="K9F35_28640"
                     /inference="COORDINATES: protein motif:HMM:NF025107.4"
                     /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_065806389.1"
                     /translation="MIPNWAPMFSWWVHNGLIRKFNWRNDEIGKPSAKVAALMIYIAIT
                     MKCAEEVGIQEVKITYTRLSEMTGISRQLIREGTAILVKLDMIDVTRIGRNNTYKLISN
                     KERSGWCKIPVRAITSEGGHAITPFEDLKLRRKVELHALKIFIYLASVRDNYTEYSLAS
                     YQTISSAVGITEKDIQRALALLSLVGLITRISSEKADDTKKNQPNRYYLAGYKSFVKRS
                     DW"
                     /name="helix-turn-helix domain-containing protein"
     Typing          complement(2238..2860)
                     /name="rep_cluster_2327"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="83.906"
                     /coverage="99.0"
                     /evalue="2.5900000000000003e-161"
ORIGIN
        1 ccgaagcctg tcagcgcgcc tgaatgagca gcaggacggt gcgtaatgtc tccgttctga
       61 gtattaccgg agtaataccg gcatcgcctt aattttcatt gtcttagcgc ttaacattat
      121 taccccggta atacccagaa tccctgtatt ttttattttt tatttatttt tcatgaagtt
      181 gcgatgaaaa tcgcagctgc gttaggtgta tgtcattttt tagtatataa aacgaccact
      241 cccgagtgct ggcgccgcag gttaaggatg attctggcta aaaagcgtcc ttttccggga
      301 aagggtcatg ctcgtatgac cctatgggtt cagcgactac acataaacta caaaattgca
      361 tctgctttta ccccagaacg cgggtgtaca acagaattac atcaaaagta catcactttt
      421 acgtcacttt tacatcattt ttacgtcaga tctgacctct gaactattcg tacatccgcc
      481 ccctcttcct gggcctcctg cacgtgctga aaatggtttt tccggctgtg ccggtaacgc
      541 ctcacggcca cgcaataaat tgcgcatccg tgaggcgtta tcggggtggt tcgtggtggc
      601 tttcagggcg ttcatcggat tttagccgct aaaatcccgg ccaggtatgt ccgtgcatag
      661 ccatgcagtc gcgccagaat catcaggggc gttttttctc gatatgggca cagaaaggtg
      721 tgtgtttcag gccggaggcc tcagaaacgc cctgagggcc tctgaggcgg tgcggccaac
      781 ggatgttatg gtaaatagct cgactctgtg gctcttactc gacgataaaa aaatagtatt
      841 ataaaacaac accttacaaa aaacatatat ttatcaatgg tttatgtttg ttttttgtga
      901 actaatagtt tatcaatttg ggcgtttttt gactgataaa tggtctttta tcgcgctaaa
      961 tttcatctta tgaactaatt tttagatgct aaaaactaat gattataaaa gtaagtgatt
     1021 gattaaattg gttttatttt ttattttcaa aaaaaattaa aaccattgtc tctagatgta
     1081 aatcctttgg cgagataaaa tttgaaaata actcctcgta gaaggacctt ttatggaaaa
     1141 tttaaccgtt atcagttcat ttattacctc aatagcccct gtcatcagtg ggttcgttcc
     1201 gttcctgttg tcattagctg ttttggcagg cttcgttgct atttgcatta ttggctggag
     1261 gaagtgagat gatccctaat tgggctccga tgttctcttg gtgggttcat aacggactta
     1321 ttcggaaatt taattggcgt aacgatgaga tcggcaaacc atcagcaaag gttgccgctc
     1381 ttatgattta catagcaatt accatgaaat gcgctgaaga agttggcatt caggaagtga
     1441 aaataaccta tacccggcta tcagaaatga cagggattag tcggcagctg ataagagaag
     1501 gtacagctat tttagttaag ctggatatga ttgatgttac gcggattggt cgaaacaaca
     1561 cctataaact gataagcaat aaagagcgta gtggatggtg caagatacct gtaagagcaa
     1621 taactagtga aggtggccat gctattacac catttgaaga tttaaagcta aggcgaaaag
     1681 tagagctgca tgcgctaaaa atattcattt atcttgcttc tgttcgtgat aactacacag
     1741 agtattcgtt agcttcttac cagactataa gtagtgctgt tggcattaca gaaaaagata
     1801 tccagagagc attagcactc ctctcattgg taggtctgat cactaggatt tctagtgaaa
     1861 aagctgatga cactaaaaag aatcagccta atcgctacta tcttgctgga tataaaagct
     1921 ttgttaaaag atcggactgg tgaatacgag gtgtacatag gcagggatgg gtttaacgct
     1981 aagctaggaa tgcattcttg acgttactct ttggctaaga gtatcgttac gcattaacga
     2041 aaaaaccgcc ctgcaaggcg gtttttcgaa ggttaagtca gttggggaac tgcttaaccg
     2101 tggtaacagg gtgaacaaga ccgctgccgc caaatttctc tttaagttta gccgttgtta
     2161 ggctcaaaca tcaagactaa agaatctata ggcatcttgt taccccgtta ccagtggcta
     2221 ccgccaatgg cgatttgtcg tgtctttccg ggttggactc aagttgatag ttaccggaac
     2281 gggcgtggta gtcggactga acggggggtt cgtgcataca gtccagcttg gagcgaactg
     2341 cctacccgga actgagtgtc aggcgtggaa tgagataaac gcggccataa cagcggaatg
     2401 acaccggtaa accgaaaggc aggaacagga gagcgcacga gggagctacc agggggaaac
     2461 gcctgggatc tttatagtcc tgtcgggttt cgccaccact gatttgagcg tcagatttcg
     2521 tgatgcttgt caggggggcg gagcctatgg aaaaacgccc ctcggggcgt ggccttttcg
     2581 cccttgtcct tagctttcgt tatgcttacc gttacgttat ctgcttatct tccctccgct
     2641 cgccgcagac tcatgaccga acggagtgag cgaatgagcg aggaagcgga aaaccatcag
     2701 aacgtacagt aagcactttc gcgccggggc cttcatgaac aaacaacaaa agactgccgt
     2761 taacatggct aaattcatcc aggatcagtc cctgcttctt ctggacaggc ttaatgagct
     2821 ggatctggat catgaggctg atttctgcga gaaactccat gaggatgcgg aacgccttta
//
