LOCUS       NZ_CP083074             4167 bp    DNA     circular CON 10-FEB-2024
DEFINITION  Klebsiella pneumoniae strain 1230_0791_KP plasmid p4-1230_0791_KP,
            complete sequence.
ACCESSION   NZ_CP083074
VERSION     NZ_CP083074.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN21016479
            Assembly: GCF_021138035.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4167)
  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  JOURNAL   Unpublished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 4167)
  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                   :: 420.61x
            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 03:11:14
            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)                     :: 5,733
            CDSs (total)                      :: 5,611
            Genes (coding)                    :: 5,487
            CDSs (with protein)               :: 5,487
            Genes (RNA)                       :: 122
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 10
            Pseudo Genes (total)              :: 124
            CDSs (without protein)            :: 124
            Pseudo Genes (ambiguous residues) :: 0 of 124
            Pseudo Genes (frameshifted)       :: 49 of 124
            Pseudo Genes (incomplete)         :: 74 of 124
            Pseudo Genes (internal stop)      :: 20 of 124
            Pseudo Genes (multiple problems)  :: 17 of 124
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP083074.1.
            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..4167
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="1230_0791_KP"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p4-1230_0791_KP"
                     /geo_loc_name="Switzerland"
                     /lat_lon="46.9321 N 7.4199 E"
                     /collection_date="2018"
                     /collected_by="Labormedizinisches Zentrum Dr Risch AG,
                     Waldeggstrasse 37, 3097 Liebefeld, Switzerland"
     gene            complement(259..372)
                     /locus_tag="K9F20_RS28550"
                     /old_locus_tag="K9F20_28460"
                     /pseudo=""
     CDS             complement(259..372)
                     /locus_tag="K9F20_RS28550"
                     /old_locus_tag="K9F20_28460"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007772075.1"
                     /note="internal stop; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /name="replication initiation protein"
     gene            788..979
                     /locus_tag="K9F20_RS28555"
                     /old_locus_tag="K9F20_28465"
     CDS             788..979
                     /locus_tag="K9F20_RS28555"
                     /old_locus_tag="K9F20_28465"
                     /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_004187666.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDVEADLCEKLHDDA
                     EHLFRTLSSRLDALQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            979..1380
                     /locus_tag="K9F20_RS28560"
                     /old_locus_tag="K9F20_28470"
     CDS             979..1380
                     /locus_tag="K9F20_RS28560"
                     /old_locus_tag="K9F20_28470"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_009310048.1"
                     /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 domain-containing protein"
                     /protein_id="WP_012579088.1"
                     /translation="MARVSISEAARLTGKSRTTLHRLIKAGDLSTCSGERNAKMVDTSE
                     LLRVFGPFEQPKGEHHSGQVSGQRDTASADQSEQVIRHLKQEIEHLNTLLLSKDSHIDS
                     LKQAMLLLENHQAKLTESPAPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(1726..1968)
                     /locus_tag="K9F20_RS28565"
                     /old_locus_tag="K9F20_28475"
     CDS             complement(1726..1968)
                     /locus_tag="K9F20_RS28565"
                     /old_locus_tag="K9F20_28475"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_098963735.1"
                     /translation="MHSAEIHTIQPGEVLFPAFFSSENGERGRNLLRGREALPAQPENR
                     FSAPSGIGFVDGRQSRYGKSPDDSPHDSPAIRIVN"
                     /name="hypothetical protein"
     gene            complement(2334..2966)
                     /locus_tag="K9F20_RS28570"
                     /old_locus_tag="K9F20_28480"
     CDS             complement(2334..2966)
                     /locus_tag="K9F20_RS28570"
                     /old_locus_tag="K9F20_28480"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000804504.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF3226 domain-containing protein"
                     /protein_id="WP_012579086.1"
                     /translation="MKDINNSKKIIFVEGDDDFHFLCNLLEIQGITDVFVEKINGKSKL
                     KQALRAFKNIDSFDEKESIFIILDADTSFSDTERSIIATLRELQISSPSSHNEIAMNGN
                     TKISFFIMPGKDKQGAIEDLIIEHASTRALYEYIIEFFEKIKNNKDDISASDKEYTYPT
                     NEKKAKVQVYLSCNRESDSRIGISMKNGIINTADNCFDEIKDFISKI"
                     /name="DUF3226 domain-containing protein"
     gene            complement(2966..4081)
                     /locus_tag="K9F20_RS28575"
                     /old_locus_tag="K9F20_28485"
     CDS             complement(2966..4081)
                     /locus_tag="K9F20_RS28575"
                     /old_locus_tag="K9F20_28485"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_019405083.1"
                     /GO_function="GO:0005524 - ATP binding [Evidence IEA];
                     GO:0016887 - ATP hydrolysis activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ATP-binding protein"
                     /protein_id="WP_012579087.1"
                     /translation="MIKEISLKNFKCFNELYLKQLKTLNIIAGKNNYGKTSILDAIFCF
                     YDVKNPAVLLNIQAFRKEMAEINKNKPFWVSYFHDMDTSQKMSIVIRDERSEVTQTYET
                     ETNQRLESSLSLNVDTVLSNQNIPRQTIGSQATVNSLKINVTETPNAKNRVSNKLFSMQ
                     LKEDGVEIKSEIKNERDGINYKFKTATIITTSRKINKEATITNVSSLLTQKRKKDILEN
                     LKKIDDRIVDIAISAIGNNKEIYLDIGFSELNEISMLGEGISRALSFISSVLVQENSII
                     LIDEIENGIHYSVIKDIIKSLISSAKQNNNQIFATTHSQDVIRAINEIDSKNEDIAYIR
                     LGREKNSLKPTAVQFNMDDFSYSVENDWEVR"
                     /name="ATP-binding protein"
     Typing          complement(260..667)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.399"
                     /coverage="99.0"
                     /evalue="5.92e-171"
ORIGIN
        1 actttatgtc aaagattaac tttgattgct tgtgttttaa tcgatttttt ttactttctt
       61 cttgagatta tctggcagca gccgtaagct tccggctgtg aacgaaaaaa accgccttgg
      121 cgggcggttt tttcgaaagg ttcagtagag ttggcgctct atgaaccgag gtaactggct
      181 taaagggagc gcagtcacca aaactgttcg tttagtttag ctttaactgg cgtataactt
      241 caagactaac tccctaaatc agttaccagt ggctgctgcc agtggcgctt tgtcgtgtct
      301 ttccgggttg gactcaagac gatagttacc ggattaggcg cagcagtcgg actgaacggg
      361 gggttcgtgc atacagtcca gcttggagcg aactgcctac ccggaactga gtgtcaggcg
      421 tggaatgaga caaacgcggc cataacagcg gaatgacacc ggtaaaccga aaggcaggaa
      481 caggagagcg cacgagggag ccatcagggg gaaacgcctg gtatctttat agtcctgtcg
      541 ggtttcgcca ccactgattt gagcgtcaga ttccgtgatg ctcgtcaggg gggcggagcc
      601 tatggaaaaa cggccgctgt gcggcctttc cttctttcct ccatgcgatt actcggtttt
      661 ctcgagcgtt tctacgcatg ctcctgccgc tcgccgcagc cgaacggcag gagcgtagcg
      721 actgagtgag cgaggaagcg gaaaagagga gatccctaca ctgaccactg acgctctgag
      781 gcctcttatg acgaaacaac agaaaacagc gctgaacatg gctaaattca tccagaatca
      841 gtctctgctc ctgctggaga agcttaacga gcttgatctc gatgtcgagg ccgacctttg
      901 tgagaaactc cacgatgatg cggagcatct tttccgtaca ctgtcctcga gactggatgc
      961 attacaggat ggtaactgat ggccagagtg tctattagtg aggctgcccg actgacgggt
     1021 aagagtagaa caacactgca caggttaatt aaagcaggtg acctgtccac ctgtagcggt
     1081 gagcgcaatg caaaaatggt agatacttca gagcttttac gtgtctttgg cccctttgag
     1141 caaccgaagg gtgaacacca ttctggacag gtctctggac agcgtgatac agcctctgct
     1201 gaccagagtg aacaggtgat ccgtcatctg aaacaggaga ttgaacacct gaacacctta
     1261 cttttgtcca aggattcgca cattgacagc ctgaaacagg ccatgctcct tcttgaaaat
     1321 caccaggcaa aattaactga atccccggcg ccatggtgga aattctggaa aaaatcctga
     1381 ccccgtcatg cttcagtttt cctctccggc catcccaggg agttcctgaa ccttcccaaa
     1441 aatcgtcaga tctctgaacg ctcctcacca ctaaaaatac ccacacccca cgcaaaatta
     1501 aaattttgca gattccttat ttacaacaat gggttaatga aaaataaatg tgcggtgatg
     1561 tgttacaaag tgcagatcca agtcgtggac gactctatgg cgaatcgctg acgaattgcc
     1621 cacgattcat atgtgaatca cgctttatta tcatattgtt atgatgaatc gactcttgat
     1681 tcaattcatc actttgggtg ttttttgctc atggtgactc ttgattcaat tcacgattcg
     1741 aatcgccggt gaatcgtgtg gtgagtcgtc cggcgacttg ccataacgtg attgccggcc
     1801 gtcgacgaac ccgattcctg aaggtgctga aaaccggttt tccggctgcg ccggcaacgc
     1861 ttcacggcca cgcaataaat tgcgtccccg ttcaccgttt tcggaggaga agaacgccgg
     1921 aaacaggact tcccctggct gaatggtgtg aatttccgcg ctatgcactt gcgcgcatac
     1981 tcatgcatgc cgtaaaaaca gagcctgcgc gtttctggcg ggttttcggg tggtttgttg
     2041 cctgttttac cggtttcccg tcagaaacgt cctgagtccg ttttagcggt gcgtacaatt
     2101 atgattttat gttaaattgt tttaagtgaa tagagagaat ataacttaag ggagcatctt
     2161 gtgctgggtc ttttacatta gatctgcaca atcattgttt tggcatctgg tgatgtcttt
     2221 aggacgtttg agattgctga taactaaagt gtatgatgct ttctatacgt tatccggcgt
     2281 ttaataacac cctggtgata agccagcccg tgaagggctg gcttgatttg gatttatatt
     2341 tttgaaataa aatcttttat ttcatcaaag caattgtctg ctgtgtttat tattccattt
     2401 ttcatggata ttcctattct tgagtcggat tctctattgc agctaagata gacttgtacc
     2461 ttagcttttt tttcgtttgt tggataagtg tactctttgt cactcgctga gatgtcatct
     2521 ttattatttt taattttttc gaaaaattct attatgtatt catataacgc tcgagtgctt
     2581 gcgtgttcaa ttatcagatc ttcaatggca ccttgcttgt cttttcctgg cattataaag
     2641 aaagaaattt ttgtattgcc attcatagct atctcgttat gcgagctggg ggaggagatt
     2701 tgtagttctc gcaatgtggc aattattgat ctttctgtgt cagaaaatga tgtgtcagca
     2761 tctaatataa taaaaatact ttctttttca tcgaaagaat caatgttttt gaatgctcta
     2821 agtgcttgtt ttaattttga ttttccattt attttttcga caaaaacatc ggtaatgcct
     2881 tgtatttcaa gtaggttgca tagaaaatga aaatcatcat caccctcaac gaaaatgatc
     2941 tttttgctat tatttatgtc tttcattatc ttacctccca gtcgttctca actgagtagg
     3001 agaaatcatc catattgaat tgtacggctg ttggttttag ggagttcttt tctcttccta
     3061 gtctaatata agcgatatct tcatttttgc tatctatttc gtttattgct cgtatcacat
     3121 cttgactatg agttgttgca aatatttgat tgttgttttg ttttgcagat gaaattaatg
     3181 attttattat gtctttaatt actgagtaat gtattccgtt ctcgatttca tcaataagaa
     3241 taattgagtt ttcctgtacc agcactgagc tgataaaaga taatgctcga ctgataccct
     3301 cgccaagcat tgatatttca tttagctcac taaatccaat gtctaaatat atttccttat
     3361 tgttacctat cgcagatatt gctatatcta caattctgtc atctattttt tttaagtttt
     3421 ctagtatgtc ttttttcctt ttttgtgtta gtaggctaga tacatttgta attgttgcct
     3481 ctttgtttat ctttctggat gttgttatta ttgttgctgt cttaaattta taattaatcc
     3541 catccctttc gttttttatt tcggatttta tttctacgcc atcttctttc aattgcatag
     3601 agaaaagctt attggaaacc ctgtttttcg cattgggtgt ctcggtcaca tttattttta
     3661 aagagtttac tgtggcctga gaaccgatag tttgacgagg tatgttttgg ttagatagta
     3721 cggtgtcaac gtttagagac aaacttgatt ctaatctctg atttgtttct gtttcatatg
     3781 tttgtgttac ttcagagcgt tcatctcgaa tgactatgga catcttttgt gatgtgtcca
     3841 tatcatgaaa gtaactaacc caaaatggct tgtttttgtt tatttctgcc atttcttttc
     3901 tgaatgcttg aatgtttaac aaaacagccg ggttttttac atcataaaaa caaaaaatag
     3961 catccagtat agatgttttc ccgtagttgt ttttcccagc tatgatattt aaagtcttta
     4021 attgctttag atatagctca ttgaagcatt tgaagttctt taaacttatt tcctttatca
     4081 tgatagcctc tgttcgtgtt tttgttatat gccatacgat ttgttagtac cttaataaaa
     4141 tgtacagctt tcattgtgat tagctag
//
