LOCUS       NZ_CP082994             4167 bp    DNA     circular CON 10-FEB-2024
DEFINITION  Klebsiella pneumoniae strain 7008.20 plasmid p6-7008.20, complete
            sequence.
ACCESSION   NZ_CP082994
VERSION     NZ_CP082994.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN21016532
            Assembly: GCF_021137675.1
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  JOURNAL   Unpublished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                   :: 331.0631x
            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 03:33:12
            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)                     :: 5,824
            CDSs (total)                      :: 5,701
            Genes (coding)                    :: 5,562
            CDSs (with protein)               :: 5,562
            Genes (RNA)                       :: 123
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 139
            CDSs (without protein)            :: 139
            Pseudo Genes (ambiguous residues) :: 0 of 139
            Pseudo Genes (frameshifted)       :: 50 of 139
            Pseudo Genes (incomplete)         :: 92 of 139
            Pseudo Genes (internal stop)      :: 21 of 139
            Pseudo Genes (multiple problems)  :: 20 of 139
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP082994.1.
            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="7008.20"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p6-7008.20"
                     /geo_loc_name="Switzerland"
                     /lat_lon="46.947928 N 7.422277 E"
                     /collection_date="2018"
                     /collected_by="Institute for Infectious Diseases (IFIK),
                     University of Bern, Friedbuehlstrasse 51, 3001 Bern,
                     Switzerland"
     gene            396..509
                     /locus_tag="K9F32_RS29010"
                     /old_locus_tag="K9F32_28905"
                     /pseudo=""
     CDS             396..509
                     /locus_tag="K9F32_RS29010"
                     /old_locus_tag="K9F32_28905"
                     /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            854..1969
                     /locus_tag="K9F32_RS29015"
                     /old_locus_tag="K9F32_28910"
     CDS             854..1969
                     /locus_tag="K9F32_RS29015"
                     /old_locus_tag="K9F32_28910"
                     /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"
     gene            1969..2601
                     /locus_tag="K9F32_RS29020"
                     /old_locus_tag="K9F32_28915"
     CDS             1969..2601
                     /locus_tag="K9F32_RS29020"
                     /old_locus_tag="K9F32_28915"
                     /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            2967..3209
                     /locus_tag="K9F32_RS29025"
                     /old_locus_tag="K9F32_28920"
     CDS             2967..3209
                     /locus_tag="K9F32_RS29025"
                     /old_locus_tag="K9F32_28920"
                     /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(3555..3956)
                     /locus_tag="K9F32_RS29030"
                     /old_locus_tag="K9F32_28925"
     CDS             complement(3555..3956)
                     /locus_tag="K9F32_RS29030"
                     /old_locus_tag="K9F32_28925"
                     /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(3956..4147)
                     /locus_tag="K9F32_RS29035"
                     /old_locus_tag="K9F32_28930"
     CDS             complement(3956..4147)
                     /locus_tag="K9F32_RS29035"
                     /old_locus_tag="K9F32_28930"
                     /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"
     Typing          102..509
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.399"
                     /coverage="99.0"
                     /evalue="5.92e-171"
ORIGIN
        1 tggtcagtgt agggatctcc tcttttccgc ttcctcgctc actcagtcgc tacgctcctg
       61 ccgttcggct gcggcgagcg gcaggagcat gcgtagaaac gctcgagaaa accgagtaat
      121 cgcatggagg aaagaaggaa aggccgcaca gcggccgttt ttccataggc tccgcccccc
      181 tgacgagcat cacggaatct gacgctcaaa tcagtggtgg cgaaacccga caggactata
      241 aagataccag gcgtttcccc ctgatggctc cctcgtgcgc tctcctgttc ctgcctttcg
      301 gtttaccggt gtcattccgc tgttatggcc gcgtttgtct cattccacgc ctgacactca
      361 gttccgggta ggcagttcgc tccaagctgg actgtatgca cgaacccccc gttcagtccg
      421 actgctgcgc ctaatccggt aactatcgtc ttgagtccaa cccggaaaga cacgacaaag
      481 cgccactggc agcagccact ggtaactgat ttagggagtt agtcttgaag ttatacgcca
      541 gttaaagcta aactaaacga acagttttgg tgactgcgct ccctttaagc cagttacctc
      601 ggttcataga gcgccaactc tactgaacct ttcgaaaaaa ccgcccgcca aggcggtttt
      661 tttcgttcac agccggaagc ttacggctgc tgccagataa tctcaagaag aaagtaaaaa
      721 aaatcgatta aaacacaagc aatcaaagtt aatctttgac ataaagtcta gctaatcaca
      781 atgaaagctg tacattttat taaggtacta acaaatcgta tggcatataa caaaaacacg
      841 aacagaggct atcatgataa aggaaataag tttaaagaac ttcaaatgct tcaatgagct
      901 atatctaaag caattaaaga ctttaaatat catagctggg aaaaacaact acgggaaaac
      961 atctatactg gatgctattt tttgttttta tgatgtaaaa aacccggctg ttttgttaaa
     1021 cattcaagca ttcagaaaag aaatggcaga aataaacaaa aacaagccat tttgggttag
     1081 ttactttcat gatatggaca catcacaaaa gatgtccata gtcattcgag atgaacgctc
     1141 tgaagtaaca caaacatatg aaacagaaac aaatcagaga ttagaatcaa gtttgtctct
     1201 aaacgttgac accgtactat ctaaccaaaa catacctcgt caaactatcg gttctcaggc
     1261 cacagtaaac tctttaaaaa taaatgtgac cgagacaccc aatgcgaaaa acagggtttc
     1321 caataagctt ttctctatgc aattgaaaga agatggcgta gaaataaaat ccgaaataaa
     1381 aaacgaaagg gatgggatta attataaatt taagacagca acaataataa caacatccag
     1441 aaagataaac aaagaggcaa caattacaaa tgtatctagc ctactaacac aaaaaaggaa
     1501 aaaagacata ctagaaaact taaaaaaaat agatgacaga attgtagata tagcaatatc
     1561 tgcgataggt aacaataagg aaatatattt agacattgga tttagtgagc taaatgaaat
     1621 atcaatgctt ggcgagggta tcagtcgagc attatctttt atcagctcag tgctggtaca
     1681 ggaaaactca attattctta ttgatgaaat cgagaacgga atacattact cagtaattaa
     1741 agacataata aaatcattaa tttcatctgc aaaacaaaac aacaatcaaa tatttgcaac
     1801 aactcatagt caagatgtga tacgagcaat aaacgaaata gatagcaaaa atgaagatat
     1861 cgcttatatt agactaggaa gagaaaagaa ctccctaaaa ccaacagccg tacaattcaa
     1921 tatggatgat ttctcctact cagttgagaa cgactgggag gtaagataat gaaagacata
     1981 aataatagca aaaagatcat tttcgttgag ggtgatgatg attttcattt tctatgcaac
     2041 ctacttgaaa tacaaggcat taccgatgtt tttgtcgaaa aaataaatgg aaaatcaaaa
     2101 ttaaaacaag cacttagagc attcaaaaac attgattctt tcgatgaaaa agaaagtatt
     2161 tttattatat tagatgctga cacatcattt tctgacacag aaagatcaat aattgccaca
     2221 ttgcgagaac tacaaatctc ctcccccagc tcgcataacg agatagctat gaatggcaat
     2281 acaaaaattt ctttctttat aatgccagga aaagacaagc aaggtgccat tgaagatctg
     2341 ataattgaac acgcaagcac tcgagcgtta tatgaataca taatagaatt tttcgaaaaa
     2401 attaaaaata ataaagatga catctcagcg agtgacaaag agtacactta tccaacaaac
     2461 gaaaaaaaag ctaaggtaca agtctatctt agctgcaata gagaatccga ctcaagaata
     2521 ggaatatcca tgaaaaatgg aataataaac acagcagaca attgctttga tgaaataaaa
     2581 gattttattt caaaaatata aatccaaatc aagccagccc ttcacgggct ggcttatcac
     2641 cagggtgtta ttaaacgccg gataacgtat agaaagcatc atacacttta gttatcagca
     2701 atctcaaacg tcctaaagac atcaccagat gccaaaacaa tgattgtgca gatctaatgt
     2761 aaaagaccca gcacaagatg ctcccttaag ttatattctc tctattcact taaaacaatt
     2821 taacataaaa tcataattgt acgcaccgct aaaacggact caggacgttt ctgacgggaa
     2881 accggtaaaa caggcaacaa accacccgaa aacccgccag aaacgcgcag gctctgtttt
     2941 tacggcatgc atgagtatgc gcgcaagtgc atagcgcgga aattcacacc attcagccag
     3001 gggaagtcct gtttccggcg ttcttctcct ccgaaaacgg tgaacgggga cgcaatttat
     3061 tgcgtggccg tgaagcgttg ccggcgcagc cggaaaaccg gttttcagca ccttcaggaa
     3121 tcgggttcgt cgacggccgg caatcacgtt atggcaagtc gccggacgac tcaccacacg
     3181 attcaccggc gattcgaatc gtgaattgaa tcaagagtca ccatgagcaa aaaacaccca
     3241 aagtgatgaa ttgaatcaag agtcgattca tcataacaat atgataataa agcgtgattc
     3301 acatatgaat cgtgggcaat tcgtcagcga ttcgccatag agtcgtccac gacttggatc
     3361 tgcactttgt aacacatcac cgcacattta tttttcatta acccattgtt gtaaataagg
     3421 aatctgcaaa attttaattt tgcgtggggt gtgggtattt ttagtggtga ggagcgttca
     3481 gagatctgac gatttttggg aaggttcagg aactccctgg gatggccgga gaggaaaact
     3541 gaagcatgac ggggtcagga ttttttccag aatttccacc atggcgccgg ggattcagtt
     3601 aattttgcct ggtgattttc aagaaggagc atggcctgtt tcaggctgtc aatgtgcgaa
     3661 tccttggaca aaagtaaggt gttcaggtgt tcaatctcct gtttcagatg acggatcacc
     3721 tgttcactct ggtcagcaga ggctgtatca cgctgtccag agacctgtcc agaatggtgt
     3781 tcacccttcg gttgctcaaa ggggccaaag acacgtaaaa gctctgaagt atctaccatt
     3841 tttgcattgc gctcaccgct acaggtggac aggtcacctg ctttaattaa cctgtgcagt
     3901 gttgttctac tcttacccgt cagtcgggca gcctcactaa tagacactct ggccatcagt
     3961 taccatcctg taatgcatcc agtctcgagg acagtgtacg gaaaagatgc tccgcatcat
     4021 cgtggagttt ctcacaaagg tcggcctcga catcgagatc aagctcgtta agcttctcca
     4081 gcaggagcag agactgattc tggatgaatt tagccatgtt cagcgctgtt ttctgttgtt
     4141 tcgtcataag aggcctcaga gcgtcag
//
