LOCUS       NZ_CP143283             5261 bp    DNA     circular CON 01-FEB-2024
DEFINITION  Klebsiella pneumoniae strain B18083 plasmid pB18083_3, complete
            sequence.
ACCESSION   NZ_CP143283
VERSION     NZ_CP143283.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN39432603
            Assembly: GCF_036320985.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5261)
  AUTHORS   Maguire,M.
  TITLE     Spatiotemporal and genomic analysis of carbapenem resistance
            elements in Enterobacterales from hospital inpatients and natural
            water ecosystems of an Irish city
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5261)
  AUTHORS   Maguire,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-JAN-2024) Bacteriology, University of Galway,
            University Road, Galway, Galway 000000, Ireland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.9
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 96.0x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina NovaSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/31/2024 23:19:16
            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)                     :: 5,608
            CDSs (total)                      :: 5,489
            Genes (coding)                    :: 5,336
            CDSs (with protein)               :: 5,336
            Genes (RNA)                       :: 119
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 9
            Pseudo Genes (total)              :: 153
            CDSs (without protein)            :: 153
            Pseudo Genes (ambiguous residues) :: 0 of 153
            Pseudo Genes (frameshifted)       :: 54 of 153
            Pseudo Genes (incomplete)         :: 104 of 153
            Pseudo Genes (internal stop)      :: 25 of 153
            Pseudo Genes (multiple problems)  :: 26 of 153
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP143283.1.
            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..5261
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="B18083"
                     /isolation_source="seawater"
                     /db_xref="taxon:573"
                     /plasmid="pB18083_3"
                     /geo_loc_name="Ireland"
                     /lat_lon="53.27927669 N 9.06174794 W"
                     /collection_date="2018"
                     /collected_by="University of Galway"
     gene            569..910
                     /locus_tag="VST99_RS27985"
                     /old_locus_tag="VST99_27985"
     CDS             569..910
                     /locus_tag="VST99_RS27985"
                     /old_locus_tag="VST99_27985"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006122514.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobC family plasmid mobilization relaxosome
                     protein"
                     /protein_id="WP_071599364.1"
                     /translation="MADKRNKMLTMWVTEDEHRRLLERCDGKQLAAWMRQTCLDEKPTR
                     AGRLPSISPALLRQLAGMGNNLNQIARKVNAGGAGHDRVQIVAALMAIDAGLERLRHAV
                     LEKGPDDDC"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            1119..>1547
                     /locus_tag="VST99_RS27990"
                     /old_locus_tag="VST99_27990"
                     /pseudo=""
     CDS             1119..>1547
                     /locus_tag="VST99_RS27990"
                     /old_locus_tag="VST99_27990"
                     /inference="COORDINATES: protein motif:HMM:NF015397.4"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            1588..2085
                     /locus_tag="VST99_RS27995"
                     /old_locus_tag="VST99_27995"
     CDS             1588..2085
                     /locus_tag="VST99_RS27995"
                     /old_locus_tag="VST99_27995"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_020325392.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeB family mobilization protein"
                     /protein_id="WP_015328238.1"
                     /translation="MSSLLTASRDFEEKSKAQQQLTEERLKAAFSKHENVVKSELNASA
                     KRINDAISAHEQGMNAAMQSNRLSVLRMVGRTWLTITMVSGLLFASLSGVLWYQGNRIA
                     ANLAEIRQQRDTLSKLHMQTWGVTYLENRNGRFLVLPEGMKAETGRTVDNKTRNAVKLV
                     RE"
                     /name="MbeB family mobilization protein"
     gene            2092..2307
                     /locus_tag="VST99_RS28000"
                     /old_locus_tag="VST99_28000"
     CDS             2092..2307
                     /locus_tag="VST99_RS28000"
                     /old_locus_tag="VST99_28000"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015328239.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MbeD family mobilization/exclusion protein"
                     /protein_id="WP_015328239.1"
                     /translation="MTELEKQLLSALEQLQQDYSRRLDEWESAFEEWRKMSGLMQRENA
                     ALSERVSGLSRQVQSLSEQLRRLSTG"
                     /name="MbeD family mobilization/exclusion protein"
     gene            2759..4009
                     /locus_tag="VST99_RS28005"
                     /old_locus_tag="VST99_28005"
     CDS             2759..4009
                     /locus_tag="VST99_RS28005"
                     /old_locus_tag="VST99_28005"
                     /EC_number="2.1.1.37"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_015160339.1"
                     /GO_function="GO:0003886 - DNA
                     (cytosine-5-)-methyltransferase activity [Evidence IEA];
                     GO:0008168 - methyltransferase activity [Evidence IEA];
                     GO:1904047 - S-adenosyl-L-methionine binding [Evidence
                     IEA]"
                     /GO_process="GO:0006304 - DNA modification [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DNA cytosine methyltransferase"
                     /protein_id="WP_001584442.1"
                     /translation="MTRPIAVDLFAGAGGLSLGFEQAGFDIMASVEIDPIHCSAHKYNF
                     PMCKTICRSVVDVTGEYVREVSGIGEKEIDVVIGGAPCQGFSLIGKRALDDDRNKLVYH
                     YVRLVLELKPKYFVFENVKGLTVGKHKQFLVEIMDAFKDGGYDVVSDYKVLNAADYGVP
                     QDRRRLFLMGGRKGIALPSYPEPLSIRTTVGDAIGDIPDAEKYPELWGRDWVYAKFGEQ
                     SLYSSYLHGVGKDPSDFSYPRIFNKDKLTCSLLTDHSDISRGRFVETLPDTVEPISRFK
                     KLSMNGLCNTLRAGTASDRGAFTSPRPIHPIYPRVITVREAARLHSYPDWFRFHVTKWH
                     GFRQVGNSVPPMLARSVGLQIMKVLGVTPKKPTKKIKLGDESLVAISMSDAASMFGVSS
                     NVIAKRIKNSNKEVVCE"
                     /name="DNA cytosine methyltransferase"
     gene            4002..4811
                     /locus_tag="VST99_RS28010"
                     /old_locus_tag="VST99_28010"
     CDS             4002..4811
                     /locus_tag="VST99_RS28010"
                     /old_locus_tag="VST99_28010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_010222407.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_032446875.1"
                     /translation="MSKDKKERSKNRYHQLVEKIFFDKYVDGDLEVLFERLDINSAAKD
                     LGIELPSNVGDVIYSIRFRTPMPESILLTQPEGKEWIIELAGRSKYRFRLVTISRILPN
                     PNMVAIKIPDNTPEIITGYSLDDEQALLAKVRYNRLIDIFLGITTYSLQNHLRTTVKGI
                     GQIEIDELYVGIDKYGCHYIIPVQAKGGTDQISMVQTSQDTAWCEQKYPNVRCRAISAQ
                     FVSSDLIALFELKIDEGQVKLIEERHYKLVPVKELDSSDISNYRMSV"
                     /name="hypothetical protein"
     gene            complement(5031..5162)
                     /locus_tag="VST99_RS28015"
                     /old_locus_tag="VST99_28015"
     CDS             complement(5031..5162)
                     /locus_tag="VST99_RS28015"
                     /old_locus_tag="VST99_28015"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_005761324.1"
                     /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_072007956.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPKRHAKAPLAAATGNRIHGAE"
                     /name="replication initiation protein"
     Typing          310..485
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="90.449"
                     /coverage="81.0"
                     /evalue="5.74e-59"
     Typing          complement(2..158)
                     /name="rep_cluster_2373"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="96.835"
                     /coverage="89.0"
                     /evalue="4.33e-68"
     Typing          complement(4823..5261)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.922"
                     /coverage="99.0"
                     /evalue="1.07e-119"
     Typing          901..2423
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.803"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 aggcaggaac aggagagcgc acgagggagc taccaggggg aaacgcctgg gatctttata
       61 gtcctgtcgg gtttcgccac cactgatttg agcgtcagat tttgtgatgc ttgtcagggg
      121 ggcggagcct atggaaaaac ggcaacgccg catccttttt cctgactttc ctgactttcc
      181 tgactttcct gactttcctg actttcctga ctttcctgac tttcctgact tgagcgcgat
      241 ctcgttatct cgtccttcgt gagctggtaa cgcccgccgc agtctcacgg caggagcgca
      301 gcgaccgagt gagcgaggag gcgtcatttc atcgttacct gcattttgca cttacgcccc
      361 gcagccgtat tttccccctt gccacatgaa gcacttcccc gaatctccat ctcgccgtaa
      421 catactaagc cagtatacac tccgctagcg ctacgtgact ggttcagggc tgcgccccga
      481 aaccccactg acgcgcctgc ggcttgtcca accccgcgcc gaccgggaaa ggctttcccg
      541 tccgtcacgg cgttatcagg aggcgattct ggcagataaa cgcaacaaga tgctcacgat
      601 gtgggtgacg gaagacgaac accggcggtt gcttgagcgg tgcgacggaa aacaactggc
      661 ggcgtggatg cgccagacct gccttgatga gaaaccgaca cgcgccggca ggcttccctc
      721 gatttcgccc gcgctgctgc gtcagcttgc cggcatgggc aataacctga accagatcgc
      781 ccggaaagtg aacgccggtg gtgccggtca tgaccgggtg cagatcgtgg cagcgctgat
      841 ggcgatcgat gccggtctgg aacggttgcg gcatgccgta ctggaaaaag ggccggacga
      901 tgattgttaa attccatccc cggggtcgcg gcgggggcgc cggtcctgtg gattatcttc
      961 tgggtaaaga ccggcagcgt gaaggtgcca gcgtcctgca ggggaagccg gaagaagtcc
     1021 gggagctgat tgatgcgtcg ccgtatgtga aaaaatatac ctccggggtg ctgtcattcg
     1081 cggaggcgga cctgccgccg ggtcagcgtg aaaaactgat ggccagcttt gagcgggttc
     1141 tgatgcccgg actcgataaa gaccagtaca gcattctgtg ggtggaacac gcagacaagg
     1201 gtcgtcttga gctgaatttt ctgatcccca ataccgaatt actgacgggg aaacgcctcc
     1261 agccgtatta cgatcgtgcc gaccggccgc gcatcgatgc gtggcagaca gtggtcaacg
     1321 gcaggctggg gctacatgat ccgaacgacc cggagaaccg gcgggcgctg gtcacgcctt
     1381 caggactgcc agaaacgaag caggaagccg cagagacgat tacacggggt ttgctgatgt
     1441 tagcctcatc aggagagctg aaaacgcgtg atgacgtcac aggggcgctc acagcggccg
     1501 gttttgaggt ggtcagaacc acaaaaaaca gtatcagcat tgccgacccg gacggggggc
     1561 gaaatatccg actgagggga gccatttatg agcagtcttt taacggcctc gagggacttc
     1621 gaggagaaat cgaaagcaca gcagcagctt accgaagaga ggctgaaagc cgcattcagc
     1681 aagcacgaga acgttgtcaa atcggaactg aacgcaagcg cgaagagaat caacgacgcc
     1741 atcagcgccc acgaacaggg gatgaacgcg gcgatgcagt cgaaccggct gagcgtgctg
     1801 cgaatggtcg ggcggacgtg gctgaccatc accatggtgt cagggctgct gttcgccagc
     1861 ctgagcgggg tgctgtggta ccaggggaac cggatagcgg cgaacctggc ggaaatcagg
     1921 cagcagagag atacgctgtc gaaactgcac atgcagacgt ggggcgtgac ctatctggag
     1981 aaccgcaacg gacggtttct ggtgctgccg gaggggatga aagccgaaac gggccggacg
     2041 gtggacaaca agacgcggaa cgcggtgaag ctggtacggg agtagagcag aatgacggaa
     2101 ctggaaaaac aattgttgag cgcgttagag cagctacagc aggactactc gagaaggctg
     2161 gacgagtggg agagcgcctt cgaggaatgg cggaagatgt ctggtcttat gcaacgggag
     2221 aacgcggcgc tgagcgagcg cgtgtcgggc ttgagcaggc aggtgcagag tttgagcgag
     2281 cagctgcgcc ggttatcgac aggctgaatg agattgagca acagcgatac gggcaaacaa
     2341 cggaaaagga accagagaag acagcagatc tggtaccgga acggcaacgc acattatctc
     2401 atggtgacag ggagtatgga gactgataaa cgcccgtctc aggtggcctg agcgtgacgg
     2461 ggatcatggc cattttctgc gatttcagca cacagagagt cttttttaac cgaaatcacc
     2521 ggctatgcag tgatgtgaat aagtgatgca tatgcgtaaa ataaatcagg tgcgtttctg
     2581 gtggttttcg gtgtacttgc caccaccttt tgcccgtcag ccatcagaaa cgccctgagt
     2641 gcctccggcg cggtgcgggt aagagatgtt atgttcaatc gaaatcagaa aaacgatcgg
     2701 taaagcgatc gtttttctga tagcatcatg ttgattttat ataacgtggg tgtaaagaat
     2761 gactagaccg attgctgttg atttatttgc tggagcgggt gggctgagtc tcggtttcga
     2821 gcaagctggc tttgatataa tggcatcagt tgaaatagat ccaatacatt gctctgctca
     2881 caaatataac tttcctatgt gcaaaacgat atgtagaagt gttgttgatg ttaccggaga
     2941 atacgttagg gaagtttcag gtattggtga gaaagagatt gatgtagtga tcggaggcgc
     3001 tccctgccaa ggcttttcat taataggaaa acgcgcgctt gatgatgata gaaacaaact
     3061 ggtctatcac tatgtacggc tggttcttga gctaaagcct aaatactttg tttttgaaaa
     3121 tgtaaaaggg ttgacggttg gtaagcataa gcagttttta gtagagataa tggatgcatt
     3181 taaagatggc gggtacgacg ttgtaagcga ttataaagtg ctaaacgcag ctgattatgg
     3241 agttcctcaa gatcgccgtc gtcttttctt aatgggggga aggaaaggaa ttgctctgcc
     3301 atcataccct gagccattat ccattagaac aacggttggg gacgctattg gggatattcc
     3361 tgatgcggaa aaatatcctg agctatgggg tagagattgg gtttatgcta aatttggtga
     3421 gcaatcacta tactcatcct atttgcatgg cgtaggaaaa gatcctagtg attttagcta
     3481 cccaaggatt tttaataaag acaaattaac gtgttcttta ctgacagatc actctgacat
     3541 ttctagaggg cggtttgttg aaactttgcc tgacacggta gaaccaatca gcaggtttaa
     3601 aaagctctcg atgaatgggc tatgtaatac tttaagggca ggaacagcaa gtgacagagg
     3661 tgcttttaca tctcctcgtc ctatacatcc gatctatcct agggtcatca cggtcagaga
     3721 ggcagcaaga ctgcattcat atcctgattg gttcagattt catgtgacta agtggcatgg
     3781 atttagacag gtcggtaata gtgttcctcc tatgctagct agaagtgttg gcttgcagat
     3841 tatgaaggtt cttggtgtta cgccaaaaaa accaacgaag aaaatcaaac tcggtgatga
     3901 aagtttggtt gctatttcta tgtccgatgc tgcatctatg tttggtgtgt catcaaatgt
     3961 aattgctaag agaataaaaa atagtaacaa ggaggttgtt tgtgagtaag gataaaaaag
     4021 aaaggtccaa aaatagatac catcagttgg tagaaaagat atttttcgat aaatatgttg
     4081 atggtgactt agaggttttg tttgaaaggt tagatataaa cagtgctgca aaagatttag
     4141 gtatagaact cccatctaat gttggtgatg ttatatattc aatcagattt agaacgccta
     4201 tgccagaaag tattctgttg actcagccag aaggtaagga gtggattatt gagctggctg
     4261 gtaggtcaaa gtatcgattt agattagtaa ctattagtag gattttgcca aatcctaata
     4321 tggtggcaat aaaaattcca gacaataccc cggagataat tacaggttat tctttagacg
     4381 acgagcaggc attgctggcg aaggtgagat ataaccggct aatagatata tttctaggta
     4441 taaccacata ttctttacag aatcatttaa gaactacggt gaagggaatt ggtcaaatag
     4501 agatcgatga actttatgta ggtatagata aatacggttg ccattatata ataccagttc
     4561 aagcaaaagg tgggacagat caaatatcaa tggtgcaaac atcgcaagat acagcgtggt
     4621 gtgaacaaaa atacccaaat gttagatgta gagctatttc cgctcagttt gtttcgagcg
     4681 atttgattgc actgtttgag ctaaagatag acgaaggaca agtgaaattg attgaggaaa
     4741 ggcattacaa actggttccg gtaaaagagt tagatagctc tgacatctca aactaccgca
     4801 tgtctgtata atttctgaga ggatcttctt gagatccttt cgttctagcc gtaatctcct
     4861 aagccgtaaa caaaaaaacc accgctacca acggtggttc gtttgccgga atttagagct
     4921 accaactctt tcttccgaag gtaactggct ttcacggagc gcagatacca aaactgtcct
     4981 ttcagtgtag ccgtagtcag gccaccactt caagaactct gtagataact ctactccgct
     5041 ccgtgaatcc gattaccagt ggctgctgcc agtggcgctt ttgcatgtct tttcgggttg
     5101 gactcaagac gatagttacc ggacaaggcg cagcagtcgg actgaacggg gggttcgtgc
     5161 atacagtcca gcttggagcg aactgcctac ccggaactga gtgtcaggcg tggaatgaga
     5221 caaacgcggc cataacagcg gaatgacacc ggtaaaccga a
//
