LOCUS       NZ_CP083062             3998 bp    DNA     circular CON 10-FEB-2024
DEFINITION  Klebsiella pneumoniae strain 1613258639 plasmid p7-1613258639,
            complete sequence.
ACCESSION   NZ_CP083062
VERSION     NZ_CP083062.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN21016543
            Assembly: GCF_021137935.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 3998)
  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  JOURNAL   Unpublished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 3998)
  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                   :: 266.8688x
            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 03:05:42
            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)                     :: 5,611
            CDSs (total)                      :: 5,484
            Genes (coding)                    :: 5,330
            CDSs (with protein)               :: 5,330
            Genes (RNA)                       :: 127
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 89
            ncRNAs                            :: 13
            Pseudo Genes (total)              :: 154
            CDSs (without protein)            :: 154
            Pseudo Genes (ambiguous residues) :: 0 of 154
            Pseudo Genes (frameshifted)       :: 67 of 154
            Pseudo Genes (incomplete)         :: 87 of 154
            Pseudo Genes (internal stop)      :: 23 of 154
            Pseudo Genes (multiple problems)  :: 20 of 154
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP083062.1.
            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..3998
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="1613258639"
                     /isolation_source="rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="p7-1613258639"
                     /geo_loc_name="Switzerland"
                     /lat_lon="46.188053 N 6.143417 E"
                     /collection_date="2020"
                     /collected_by="Dianalabs, Rue de la Colline 6, 1205 Geneva,
                     Switzerland"
     gene            complement(join(3669..3998,1..864))
                     /gene="mobQ"
                     /locus_tag="K9F40_RS27970"
                     /old_locus_tag="K9F40_27950"
     CDS             complement(join(3669..3998,1..864))
                     /gene="mobQ"
                     /locus_tag="K9F40_RS27970"
                     /old_locus_tag="K9F40_27950"
                     /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="MobQ family relaxase"
                     /protein_id="WP_076997031.1"
                     /translation="MATFHISFKKLRRSEGKSSVYLSAYQNREKTKDNRTGATWDYSKK
                     EGFFGSAILSPAGTPAELVKDSGTLWNAVEAGEKRKDAELCRYLDIAIPKELDDGQKKQ
                     IVLDYCQENFVDYGMIADIAFHDLDSHNPHAHVMLTLRTVSPNGFGNKQREWNNRENIE
                     AWRVNWEIIANDRLKKYGHKSRIDSRSLKDQKEEAERKAVFAKTPKEKAKWISKTIELD
                     RTPMTRIHRHQWRKGQKLRAMEQKEKALLLKIANATYLQQTKPPQPEETMKIEKKPLAR
                     SIIDNLKALYKKTQHIFKSKPNVNKNKKEEKEDPQNFVSSYVINEFGEHILKTELETKP
                     KTGTGTGTGGNNGGGKMGSGSGMSPMNQPQPKIEEPEPEPMPEFEDQQPKRKKKFGM"
                     /name="mobQ"
     gene            1108..1491
                     /locus_tag="K9F40_RS27975"
                     /old_locus_tag="K9F40_27955"
     CDS             1108..1491
                     /locus_tag="K9F40_RS27975"
                     /old_locus_tag="K9F40_27955"
                     /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_071579763.1"
                     /translation="MNKLITEAEGAKIESVFKYILEASESILIEHGHVITGQIIKNKKF
                     FADNGHKDFERLEYYLSSAISSLVEDKVTEGIKDINTDENLVFKKINELSDKEKLILAE
                     CIIKHFEYSNVRGMQKAFNIFGG"
                     /name="hypothetical protein"
     gene            1495..1779
                     /locus_tag="K9F40_RS27980"
                     /old_locus_tag="K9F40_27960"
     CDS             1495..1779
                     /locus_tag="K9F40_RS27980"
                     /old_locus_tag="K9F40_27960"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001549726.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="conjugal transfer protein TraD"
                     /protein_id="WP_071579762.1"
                     /translation="MSKTTAQQIADLQNKLQALRTKKARQDRREETRQKIILGAEVAKV
                     LGKKPEEINKALILGLLSKINELDEEEKQEFTRLGLNILEEWKNENRKP"
                     /name="conjugal transfer protein TraD"
     gene            complement(2018..2281)
                     /locus_tag="K9F40_RS27985"
                     /old_locus_tag="K9F40_27965"
     CDS             complement(2018..2281)
                     /locus_tag="K9F40_RS27985"
                     /old_locus_tag="K9F40_27965"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001722510.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_045287009.1"
                     /translation="MIINGKKIKAKEIMEMTGRSERTVRKYFSQSRDDYEKTAMDRRRQ
                     AYELRSQGLKWQQVADKMGCSYHGAVALYRRYVALDMPQNSL"
                     /name="hypothetical protein"
     gene            complement(2278..3132)
                     /locus_tag="K9F40_RS27990"
                     /old_locus_tag="K9F40_27970"
     CDS             complement(2278..3132)
                     /locus_tag="K9F40_RS27990"
                     /old_locus_tag="K9F40_27970"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000586611.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_071579761.1"
                     /translation="MIIQEEHNIDFFKNQMPNKPYCTNNLDMGLSIRNKAKALEMLYLQ
                     ANQPAIQTCLLFDLDKKNSFYTFEQVGLPIPHFITKTPKTGRCHYGYMLKAGVCKTQQA
                     RLKPLKYAAAVEMAMAKKLKADLGFAGLITKNPLNDHWSPFWSGADLYDLDYLADFVDL
                     EKPQIQKKKSEAYGLGRNVNLFEDLRQYAYRTVLNFKKISTFEKFENELLLKAQGLNTF
                     CNPQNPLQYKEIKATVRSVARWTWKNFDSHTFSQIQSNRAKKPRKTNVKNEMLDILMSK
                     GVL"
                     /name="replication initiation protein"
     Typing          complement(2..864)
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="85.0"
                     /evalue="0.0"
ORIGIN
        1 ctttaaatta tcaatgattg accttgcaag aggctttttc tctattttca tagtttcctc
       61 tggctgaggt ggtttggttt gctgtaagta tgttgcatta gctattttta ataataatgc
      121 tttttctttt tgctccatag ctcttaattt ttgacctttt cgccattggt gcctgtgtat
      181 cctggtcatt ggcgttctgt ccagttcaat agtttttgaa atccacttgg ctttctcttt
      241 cggagtttta gcaaaaacag cctttctttc tgcctcttct ttttggtctt ttaatgaacg
      301 ggagtcaata cgagatttat gaccatattt ttttaatcgg tcatttgcta ttatttccca
      361 gttaactcgc caggcttcaa tgttttctct attattccat tctctttgtt tgttcccaaa
      421 tccatttggg ctaacagttc ttaaagttag cattacatga gcatgagggt tatgactatc
      481 aagatcatga aatgctatgt ctgcaatcat tccataatcc acgaaatttt cttggcagta
      541 atcgaggacg atctgcttct tctggccgtc gtccagctcc ttggggatgg ctatgtccag
      601 ataacggcat aattcggcat cctttcgctt ctcgccagcc tctacggcat tccagagggt
      661 gcctgagtcc ttcaccagtt cggcaggtgt gccggcaggg gagaggatag cagagccgaa
      721 aaatccctct ttttttgaat aatcccaggt tgccccggtt cgattatctt ttgtcttttc
      781 tcggttttga tatgcagata aataaaccga agatttacct tctgatcttc gtaatttttt
      841 aaagctgata tgaaatgtcg ccatagtcta ccccttactt tttttgtctt ttgaattttg
      901 gtttttagcc ccgcagggcc catacgtcgc aagcgacgtg taagtgggca ttactaatat
      961 tattttttcg gttgcacctc aaaataataa gtaatgaacc ccaggcttcg cccaatatta
     1021 aatattattt gttttattct aaaatatatt tgactaaagt aaataatgga ggtaataaat
     1081 aacaaaataa ataattagga ggttattatg aataaactta taacagaggc agaaggtgca
     1141 aaaatcgaaa gtgtttttaa atacatatta gaggcatctg aaagcatatt aatagagcat
     1201 gggcatgtta ttacggggca aataataaaa aacaaaaagt tctttgctga taacgggcat
     1261 aaagattttg aaaggttaga gtattacctt agctcggcaa ttagttctct tgtcgaggat
     1321 aaggtaacag aaggcattaa agacattaac acggatgaga accttgtttt taaaaaaata
     1381 aatgaattga gtgacaagga aaaattaatt ttagcagagt gcattattaa acattttgaa
     1441 tattcaaatg ttagaggaat gcaaaaggca tttaatattt ttggggggta atggatgagt
     1501 aaaacgacag cacagcagat cgcagatttg caaaataaac tacaagcatt aagaacaaaa
     1561 aaagcaagac aggacagaag ggaagaaaca agacaaaaaa taatcctggg tgcagaagtg
     1621 gctaaggttt taggtaaaaa accggaggaa attaacaagg ctttaattct tgggttgtta
     1681 agtaaaataa atgaacttga cgaagaagaa aaacaagaat tcacacgatt aggattaaat
     1741 attttagaag agtggaagaa tgaaaatcgt aaaccgtgaa caataaaaaa ccagccgatc
     1801 ttggctggtt ttttactgtg aagggttgcc aggcttgcct ggaggtctta aaaaggctca
     1861 gagaggctct cagggcttat gggtgggttt gttgattgtt gggtacctga gtgcctctca
     1921 gttcgagata cagggcccgg atacggggaa aggggaaaaa atccccccag gggtggaggg
     1981 tttggttagg ttagggggaa aaactgctta gaagtcgtta caggctgttt tgaggcatat
     2041 ctaaggcaac ataacggcga tacagggcaa cggctccgtg atacgaacag cccattttgt
     2101 cggctacttg ttgccatttc agcccctggc ttcgtagttc gtaagcctga cgacgacgat
     2161 ccattgctgt tttttcgtaa tcgtcacgag attgagaaaa atattttctt acagttcttt
     2221 cactacgacc tgtcatttcc attatttctt ttgcttttat ttttttacca ttaatgatca
     2281 taaaaccccc ttgctcatta atatgtctaa catttcattt ttaacattgg tttttcgagg
     2341 ttttttggct ctgtttgatt ggatttgtga aaatgtatgg ctatcaaaat ttttccaagt
     2401 ccaacgggct acacttctaa ctgttgcttt tatctctttg tattgtaacg ggttttgtgg
     2461 attgcaaaaa gtgtttaagc cctgtgcctt taatagtagt tcgttttcga atttctcgaa
     2521 agtggatatt tttttgaaat ttaaaaccgt tctgtaagca tattgccgta gatcttcaaa
     2581 caaattaaca ttgcgaccta aaccataagc ctcgcttttt ttcttttgta tttgaggctt
     2641 ttctaagtcc acaaaatcag ctaaataatc caggtcataa aggtcagcac ctgaccagaa
     2701 cggcgaccag tgatcattga gtgggttttt tgtaatcaat ccagcaaacc ccagatctgc
     2761 ttttagtttt ttcgccatag ccatttcaac ggctgcggca tacttcaacg gctttaacct
     2821 tgcttgttgt gtcttacaaa ccccggcttt cagcatatag ccgtagtgac aacgacctgt
     2881 ttttggtgtt tttgtaataa agtgaggtat gggtaagccc acctgctcaa atgtatagaa
     2941 tgaatttttc ttatctagat caaagagtaa gcaagtttga atggctggct gatttgcctg
     3001 taaatacagc atttcaaggg cttttgcctt gttccttatg cttaatccca tatcgaggtt
     3061 atttgtacaa taaggcttgt taggcatttg atttttaaaa aaatcgatgt tatgttcttc
     3121 ttgtattatc attttttcag tcctttttat ctggccctac tctctgtttt ctgtcgccaa
     3181 aacaaaatcg cagagggtgg ggtttttatt tttatagatt tttcaatcct gtaccagttc
     3241 taaccgatct caaaaatttg tcaagtgtgc gtctaaccat atcagataac agcccaacga
     3301 agttggggca gttctttaca tacggcagca aagcattact atcagatcta tggtgcgaag
     3361 cattaccgaa gatagaaaaa caataaaaaa agaaaaaaga gtattgttcg aagaaaaatt
     3421 ggcgattcga ttttttttgg tgaatatatg aaaaaaaaga aagtgcagaa aaaacggaaa
     3481 agaaataagc atagtaaatt ttttaaaatg cttatgaagt cagttaatga agctgtggca
     3541 atacataaag gggaaatgga accggcgagg atcacaactc taaaaatgta gtatcttata
     3601 gtatagtatt aaataatatt aagttgtatt aagtgatact actatatagg aatatatacc
     3661 actatatact acattccaaa tttcttcttc ctcttaggtt gctgatcttc gaattccggc
     3721 attggttccg gctcaggctc ttcaattttt ggttgtggtt ggttcatagg agacattcca
     3781 gagcctgaac ccatttttcc gcctccatta tttccaccgg ttccggttcc tgtgcctgtt
     3841 ttaggttttg tttctaactc tgtctttaat atatgttcgc caaattcatt tattacataa
     3901 ctactaacga aattttgagg atcttctttt tcttcttttt tatttttatt tacattaggt
     3961 tttgatttaa atatatgctg ggtctttttg tataatgc
//
