LOCUS       NZ_CP115710             4173 bp    DNA     circular CON 18-MAR-2024
DEFINITION  Klebsiella pneumoniae strain CPE16 plasmid pCPE16_4, complete
            sequence.
ACCESSION   NZ_CP115710
VERSION     NZ_CP115710.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN32542161
            Assembly: GCF_028583665.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4173)
  AUTHORS   Element,S.J., Moran,R.A., Beattie,E., Hall,R.J., van Schaik,W. and
            Buckner,M.M.
  TITLE     Growth in a biofilm promotes conjugation of ablaNDM-1-bearing
            plasmid betweenKlebsiella pneumoniaestrains
  JOURNAL   bioRxiv (2023)
  REMARK    DOI: 10.1101/2023.01.05.522703
REFERENCE   2  (bases 1 to 4173)
  AUTHORS   Element,S.J., Moran,R.A., Beattie,E., Hall,R.J., van Schaik,W. and
            Buckner,M.C.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-JAN-2023) Institute of Microbiology and Infection,
            University of Birmingham, Edgbaston, Birmingham B15 2TT, United
            Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 30X
            Sequencing Technology :: Illumina; Oxford Nanopore GridION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_028583665.1-RS_2024_03_18
            Annotation Date                   :: 03/18/2024 05:14:06
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,557
            CDSs (total)                      :: 5,437
            Genes (coding)                    :: 5,287
            CDSs (with protein)               :: 5,287
            Genes (RNA)                       :: 120
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 84
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 150
            CDSs (without protein)            :: 150
            Pseudo Genes (ambiguous residues) :: 0 of 150
            Pseudo Genes (frameshifted)       :: 64 of 150
            Pseudo Genes (incomplete)         :: 81 of 150
            Pseudo Genes (internal stop)      :: 26 of 150
            Pseudo Genes (multiple problems)  :: 17 of 150
            CRISPR Arrays                     :: 2
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP115710.1.
            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..4173
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="CPE16"
                     /db_xref="taxon:573"
                     /plasmid="pCPE16_4"
                     /geo_loc_name="United Kingdom"
                     /collection_date="2019"
     gene            complement(join(3722..4173,1..664))
                     /locus_tag="PGD48_RS27725"
                     /old_locus_tag="PGD48_27720"
     CDS             complement(join(3722..4173,1..664))
                     /locus_tag="PGD48_RS27725"
                     /old_locus_tag="PGD48_27720"
                     /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            complement(1009..1122)
                     /locus_tag="PGD48_RS27730"
                     /old_locus_tag="PGD48_27725"
                     /pseudo=""
     CDS             complement(1009..1122)
                     /locus_tag="PGD48_RS27730"
                     /old_locus_tag="PGD48_27725"
                     /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            1538..1729
                     /locus_tag="PGD48_RS27735"
                     /old_locus_tag="PGD48_27730"
     CDS             1538..1729
                     /locus_tag="PGD48_RS27735"
                     /old_locus_tag="PGD48_27730"
                     /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            1729..2130
                     /locus_tag="PGD48_RS27740"
                     /old_locus_tag="PGD48_27735"
     CDS             1729..2130
                     /locus_tag="PGD48_RS27740"
                     /old_locus_tag="PGD48_27735"
                     /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(3090..3722)
                     /locus_tag="PGD48_RS27745"
                     /old_locus_tag="PGD48_27740"
     CDS             complement(3090..3722)
                     /locus_tag="PGD48_RS27745"
                     /old_locus_tag="PGD48_27740"
                     /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"
     Typing          complement(1010..1417)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.399"
                     /coverage="99.0"
                     /evalue="5.92e-171"
ORIGIN
        1 tttctagtat gtcttttttc cttttttgtg ttagtaggct agatacattt gtaattgttg
       61 cctctttgtt tatctttctg gatgttgtta ttattgttgc tgtcttaaat ttataattaa
      121 tcccatccct ttcgtttttt atttcggatt ttatttctac gccatcttct ttcaattgca
      181 tagagaaaag cttattggaa accctgtttt tcgcattggg tgtctcggtc acatttattt
      241 ttaaagagtt tactgtggcc tgagaaccga tagtttgacg aggtatgttt tggttagata
      301 gtacggtgtc aacgtttaga gacaaacttg attctaatct ctgatttgtt tctgtttcat
      361 atgtttgtgt tacttcagag cgttcatctc gaatgactat ggacatcttt tgtgatgtgt
      421 ccatatcatg aaagtaacta acccaaaatg gcttgttttt gtttatttct gccatttctt
      481 ttctgaatgc ttgaatgttt aacaaaacag ccgggttttt tacatcataa aaacaaaaaa
      541 tagcatccag tatagatgtt ttcccgtagt tgtttttccc agctatgata tttaaagtct
      601 ttaattgctt tagatatagc tcattgaagc atttgaagtt ctttaaactt atttccttta
      661 tcatgatagc ctctgttcgt gtttttgtta tatgccatac gatttgttag taccttaata
      721 aaatgtacag ctttcattgt gattagctag actttatgtc aaagattaac tttgattgct
      781 tgtgttttaa tcgatttttt ttactttctt cttgagatta tctggcagca gccgtaagct
      841 tccggctgtg aacgaaaaaa accgccttgg cgggcggttt tttcgaaagg ttcagtagag
      901 ttggcgctct atgaaccgag gtaactggct taaagggagc gcagtcacca aaactgttcg
      961 tttagtttag ctttaactgg cgtataactt caagactaac tccctaaatc agttaccagt
     1021 ggctgctgcc agtggcgctt tgtcgtgtct ttccgggttg gactcaagac gatagttacc
     1081 ggattaggcg cagcagtcgg actgaacggg gggttcgtgc atacagtcca gcttggagcg
     1141 aactgcctac ccggaactga gtgtcaggcg tggaatgaga caaacgcggc cataacagcg
     1201 gaatgacacc ggtaaaccga aaggcaggaa caggagagcg cacgagggag ccatcagggg
     1261 gaaacgcctg gtatctttat agtcctgtcg ggtttcgcca ccactgattt gagcgtcaga
     1321 ttccgtgatg ctcgtcaggg gggcggagcc tatggaaaaa cggccgctgt gcggcctttc
     1381 cttctttcct ccatgcgatt actcggtttt ctcgagcgtt tctacgcatg ctcctgccgc
     1441 tcgccgcagc cgaacggcag gagcgtagcg actgagtgag cgaggaagcg gaaaagagga
     1501 gatccctaca ctgaccactg acgctctgag gcctcttatg acgaaacaac agaaaacagc
     1561 gctgaacatg gctaaattca tccagaatca gtctctgctc ctgctggaga agcttaacga
     1621 gcttgatctc gatgtcgagg ccgacctttg tgagaaactc cacgatgatg cggagcatct
     1681 tttccgtaca ctgtcctcga gactggatgc attacaggat ggtaactgat ggccagagtg
     1741 tctattagtg aggctgcccg actgacgggt aagagtagaa caacactgca caggttaatt
     1801 aaagcaggtg acctgtccac ctgtagcggt gagcgcaatg caaaaatggt agatacttca
     1861 gagcttttac gtgtctttgg cccctttgag caaccgaagg gtgaacacca ttctggacag
     1921 gtctctggac agcgtgatac agcctctgct gaccagagtg aacaggtgat ccgtcatctg
     1981 aaacaggaga ttgaacacct gaacacctta cttttgtcca aggattcgca cattgacagc
     2041 ctgaaacagg ccatgctcct tcttgaaaat caccaggcaa aattaactga atccccggcg
     2101 ccatggtgga aattctggaa aaaatcctga ccccgtcatg cttcagtttt cctctccggc
     2161 catcccgggg agttcctgaa ccttcccaaa aatcgtcaga tctctgaacg ctcctcacca
     2221 ctaaaaatac ccatacccac accccacgca aaattaaaat tttgcagatt ccttatttac
     2281 aacaatgggt taatgaaaaa taaatgtgcg gtgatgtgtt acaaagtgca gatccaagtc
     2341 gtggacgact ctatggcgaa tcgctgacga attgcccacg attcatatgt gaatcacgct
     2401 ttattatcat attgttatga tgaatcgact cttgattcaa ttcatcactt tgggtgtttt
     2461 ttgctcatgg tgactcttga ttcaattcac gattcgaatc gccggtgaat cgtgtggtga
     2521 gtcgtccggc gacttgccat aacgtgattg ccggccgtcg acgaacccga ttcctgaagg
     2581 tgctgaaaac cggttttccg gctgcgccgg caacgcttca cggccacgca ataaattgcg
     2641 tccccgttca ccgttttcgg atggaaagaa cgccggaaac aggacttact ctggctgaat
     2701 ggcgtgaatt ttcgcgctat gcacttgcgt gcatactcat gcatgccgta aaaacagagc
     2761 ctgcgcgttt ctggcgggtt ttcgggtggt ttgttgcctg ttttaccggt tttccgtcag
     2821 aaacgccctg aggccgtttt agcggtgcgt acaattatga ttttatgtta aattgtttta
     2881 agtgaataga gagaatataa cttaagggag catcttgtgc tgggtctttt acattagatc
     2941 tgcacaatca ttgttttggc atctggtgat gtctttagga cgtttgagat tgctgataac
     3001 taaagtgtat gatgctttct atacgttatc cggcgtttaa taacaccctg gtgataagcc
     3061 agcccgtgaa gggctggctt gatttggatt tatatttttg aaataaaatc ttttatttca
     3121 tcaaagcaat tgtctgctgt gtttattatt ccatttttca tggatattcc tattcttgag
     3181 tcggattctc tattgcagct aagatagact tgtaccttag cttttttttc gtttgttgga
     3241 taagtgtact ctttgtcact cgctgagatg tcatctttat tatttttaat tttttcgaaa
     3301 aattctatta tgtattcata taacgctcga gtgcttgcgt gttcaattat cagatcttca
     3361 atggcacctt gcttgtcttt tcctggcatt ataaagaaag aaatttttgt attgccattc
     3421 atagctatct cgttatgcga gctgggggag gagatttgta gttctcgcaa tgtggcaatt
     3481 attgatcttt ctgtgtcaga aaatgatgtg tcagcatcta atataataaa aatactttct
     3541 ttttcatcga aagaatcaat gtttttgaat gctctaagtg cttgttttaa ttttgatttt
     3601 ccatttattt tttcgacaaa aacatcggta atgccttgta tttcaagtag gttgcataga
     3661 aaatgaaaat catcatcacc ctcaacgaaa atgatctttt tgctattatt tatgtctttc
     3721 attatcttac ctcccagtcg ttctcaactg agtaggagaa atcatccata ttgaattgta
     3781 cggctgttgg ttttagggag ttcttttctc ttcctagtct aatataagcg atatcttcat
     3841 ttttgctatc tatttcgttt attgctcgta tcacatcttg actatgagtt gttgcaaata
     3901 tttgattgtt gttttgtttt gcagatgaaa ttaatgattt tattatgtct ttaattactg
     3961 agtaatgtat tccgttctcg atttcatcaa taagaataat tgagttttcc tgtaccagca
     4021 ctgagctgat aaaagataat gctcgactga taccctcgcc aagcattgat atttcattta
     4081 gctcactaaa tccaatgtct aaatatattt ccttattgtt acctatcgca gatattgcta
     4141 tatctacaat tctgtcatct atttttttta agt
//
