LOCUS       NZ_CP144707             5243 bp    DNA     circular CON 05-APR-2024
DEFINITION  Klebsiella pneumoniae strain B18235 plasmid pB18235_5, complete
            sequence.
ACCESSION   NZ_CP144707
VERSION     NZ_CP144707.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN39434441
            Assembly: GCF_036687385.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5243)
  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  JOURNAL   Unpublished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 5243)
  AUTHORS   Maguire,M.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-JAN-2024) Bacteriology, University of Galway,
            University Road, Galway, Galway 000000, Ireland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 2023
            Assembly Method                   :: Unicycler v. 0.4.9
            Assembly Name                     :: B18235
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 136.0x
            Sequencing Technology :: Oxford Nanopore MinION; Illumina NovaSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_036687385.1-RS_2024_04_05
            Annotation Date                   :: 04/05/2024 15:43:26
            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)                     :: 5,646
            CDSs (total)                      :: 5,522
            Genes (coding)                    :: 5,405
            CDSs (with protein)               :: 5,405
            Genes (RNA)                       :: 124
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 87
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 117
            CDSs (without protein)            :: 117
            Pseudo Genes (ambiguous residues) :: 0 of 117
            Pseudo Genes (frameshifted)       :: 47 of 117
            Pseudo Genes (incomplete)         :: 72 of 117
            Pseudo Genes (internal stop)      :: 15 of 117
            Pseudo Genes (multiple problems)  :: 17 of 117
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP144707.1.
            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..5243
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="B18235"
                     /isolation_source="River estuary"
                     /db_xref="taxon:573"
                     /plasmid="pB18235_5"
                     /geo_loc_name="Ireland"
                     /collection_date="2018"
     gene            join(5206..5243,1..94)
                     /locus_tag="VXE08_RS28135"
                     /old_locus_tag="VXE08_28135"
     CDS             join(5206..5243,1..94)
                     /locus_tag="VXE08_RS28135"
                     /old_locus_tag="VXE08_28135"
                     /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"
     gene            complement(314..1123)
                     /locus_tag="VXE08_RS28140"
                     /old_locus_tag="VXE08_28140"
     CDS             complement(314..1123)
                     /locus_tag="VXE08_RS28140"
                     /old_locus_tag="VXE08_28140"
                     /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(1116..2366)
                     /locus_tag="VXE08_RS28145"
                     /old_locus_tag="VXE08_28145"
     CDS             complement(1116..2366)
                     /locus_tag="VXE08_RS28145"
                     /old_locus_tag="VXE08_28145"
                     /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            complement(2818..3033)
                     /locus_tag="VXE08_RS28150"
                     /old_locus_tag="VXE08_28150"
     CDS             complement(2818..3033)
                     /locus_tag="VXE08_RS28150"
                     /old_locus_tag="VXE08_28150"
                     /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            complement(3040..3537)
                     /locus_tag="VXE08_RS28155"
                     /old_locus_tag="VXE08_28155"
     CDS             complement(3040..3537)
                     /locus_tag="VXE08_RS28155"
                     /old_locus_tag="VXE08_28155"
                     /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            complement(<3578..4276)
                     /locus_tag="VXE08_RS28160"
                     /old_locus_tag="VXE08_28160"
                     /pseudo=""
     CDS             complement(<3578..4276)
                     /locus_tag="VXE08_RS28160"
                     /old_locus_tag="VXE08_28160"
                     /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            complement(4215..4556)
                     /locus_tag="VXE08_RS28165"
                     /old_locus_tag="VXE08_28165"
     CDS             complement(4215..4556)
                     /locus_tag="VXE08_RS28165"
                     /old_locus_tag="VXE08_28165"
                     /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"
     Typing          complement(4641..4816)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="90.449"
                     /coverage="81.0"
                     /evalue="5.74e-59"
     Typing          4965..5243
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.73"
                     /coverage="85.0"
                     /evalue="2.9400000000000003e-124"
     Typing          complement(2703..4225)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.803"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(4222..4535)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="92.453"
                     /coverage="99.0"
                     /evalue="1.04e-58"
ORIGIN
        1 gtccggtaac tatcgtcttg agtccaaccc gaaaagacat gcaaaagcgc cactggcagc
       61 agccactggt aatcggattc acggagcgga gtagagttat ctacagagtt cttgaagtgg
      121 tggcctgact acggctacac tgaaaggaca gttttggtat ctgcgctccg tgaaagccag
      181 ttaccttcgg aagaaagagt tggtagctct aaattccggc aaacgaacca ccgttggtag
      241 cggtggtttt tttgtttacg gcttaggaga ttacggctag aacgaaagga tctcaagaag
      301 atcctctcag aaattataca gacatgcggt agtttgagat gtcagagcta tctaactctt
      361 ttaccggaac cagtttgtaa tgcctttcct caatcaattt cacttgtcct tcgtctatct
      421 ttagctcaaa cagtgcaatc aaatcgctcg aaacaaactg agcggaaata gctctacatc
      481 taacatttgg gtatttttgt tcacaccacg ctgtatcttg cgatgtttgc accattgata
      541 tttgatctgt cccacctttt gcttgaactg gtattatata atggcaaccg tatttatcta
      601 tacctacata aagttcatcg atctctattt gaccaattcc cttcaccgta gttcttaaat
      661 gattctgtaa agaatatgtg gttataccta gaaatatatc tattagccgg ttatatctca
      721 ccttcgccag caatgcctgc tcgtcgtcta aagaataacc tgtaattatc tccggggtat
      781 tgtctggaat ttttattgcc accatattag gatttggcaa aatcctacta atagttacta
      841 atctaaatcg atactttgac ctaccagcca gctcaataat ccactcctta ccttctggct
      901 gagtcaacag aatactttct ggcataggcg ttctaaatct gattgaatat ataacatcac
      961 caacattaga tgggagttct atacctaaat cttttgcagc actgtttata tctaaccttt
     1021 caaacaaaac ctctaagtca ccatcaacat atttatcgaa aaatatcttt tctaccaact
     1081 gatggtatct atttttggac ctttcttttt tatccttact cacaaacaac ctccttgtta
     1141 ctatttttta ttctcttagc aattacattt gatgacacac caaacataga tgcagcatcg
     1201 gacatagaaa tagcaaccaa actttcatca ccgagtttga ttttcttcgt tggttttttt
     1261 ggcgtaacac caagaacctt cataatctgc aagccaacac ttctagctag cataggagga
     1321 acactattac cgacctgtct aaatccatgc cacttagtca catgaaatct gaaccaatca
     1381 ggatatgaat gcagtcttgc tgcctctctg accgtgatga ccctaggata gatcggatgt
     1441 ataggacgag gagatgtaaa agcacctctg tcacttgctg ttcctgccct taaagtatta
     1501 catagcccat tcatcgagag ctttttaaac ctgctgattg gttctaccgt gtcaggcaaa
     1561 gtttcaacaa accgccctct agaaatgtca gagtgatctg tcagtaaaga acacgttaat
     1621 ttgtctttat taaaaatcct tgggtagcta aaatcactag gatcttttcc tacgccatgc
     1681 aaataggatg agtatagtga ttgctcacca aatttagcat aaacccaatc tctaccccat
     1741 agctcaggat atttttccgc atcaggaata tccccaatag cgtccccaac cgttgttcta
     1801 atggataatg gctcagggta tgatggcaga gcaattcctt tccttccccc cattaagaaa
     1861 agacgacggc gatcttgagg aactccataa tcagctgcgt ttagcacttt ataatcgctt
     1921 acaacgtcgt acccgccatc tttaaatgca tccattatct ctactaaaaa ctgcttatgc
     1981 ttaccaaccg tcaacccttt tacattttca aaaacaaagt atttaggctt tagctcaaga
     2041 accagccgta catagtgata gaccagtttg tttctatcat catcaagcgc gcgttttcct
     2101 attaatgaaa agccttggca gggagcgcct ccgatcacta catcaatctc tttctcacca
     2161 atacctgaaa cttccctaac gtattctccg gtaacatcaa caacacttct acatatcgtt
     2221 ttgcacatag gaaagttata tttgtgagca gagcaatgta ttggatctat ttcaactgat
     2281 gccattatat caaagccagc ttgctcgaaa ccgagactca gcccacccgc tccagcaaat
     2341 aaatcaacag caatcggtct agtcattctt tacacccacg ttatataaaa tcaacatgat
     2401 gctatcagaa aaacgatcgc tttaccgatc gtttttctga tttcgattga acataacatc
     2461 tcttacccgc accgcgccgg aggcactcag ggcgtttctg atggctgacg ggcaaaaggt
     2521 ggtggcaagt acaccgaaaa ccaccagaaa cgcacctgat ttattttacg catatgcatc
     2581 acttattcac atcactgcat agccggtgat ttcggttaaa aaagactctc tgtgtgctga
     2641 aatcgcagaa aatggccatg atccccgtca cgctcaggcc acctgagacg ggcgtttatc
     2701 agtctccata ctccctgtca ccatgagata atgtgcgttg ccgttccggt accagatctg
     2761 ctgtcttctc tggttccttt tccgttgttt gcccgtatcg ctgttgctca atctcattca
     2821 gcctgtcgat aaccggcgca gctgctcgct caaactctgc acctgcctgc tcaagcccga
     2881 cacgcgctcg ctcagcgccg cgttctcccg ttgcataaga ccagacatct tccgccattc
     2941 ctcgaaggcg ctctcccact cgtccagcct tctcgagtag tcctgctgta gctgctctaa
     3001 cgcgctcaac aattgttttt ccagttccgt cattctgctc tactcccgta ccagcttcac
     3061 cgcgttccgc gtcttgttgt ccaccgtccg gcccgtttcg gctttcatcc cctccggcag
     3121 caccagaaac cgtccgttgc ggttctccag ataggtcacg ccccacgtct gcatgtgcag
     3181 tttcgacagc gtatctctct gctgcctgat ttccgccagg ttcgccgcta tccggttccc
     3241 ctggtaccac agcaccccgc tcaggctggc gaacagcagc cctgacacca tggtgatggt
     3301 cagccacgtc cgcccgacca ttcgcagcac gctcagccgg ttcgactgca tcgccgcgtt
     3361 catcccctgt tcgtgggcgc tgatggcgtc gttgattctc ttcgcgcttg cgttcagttc
     3421 cgatttgaca acgttctcgt gcttgctgaa tgcggctttc agcctctctt cggtaagctg
     3481 ctgctgtgct ttcgatttct cctcgaagtc cctcgaggcc gttaaaagac tgctcataaa
     3541 tggctcccct cagtcggata tttcgccccc cgtccgggtc ggcaatgctg atactgtttt
     3601 ttgtggttct gaccacctca aaaccggccg ctgtgagcgc ccctgtgacg tcatcacgcg
     3661 ttttcagctc tcctgatgag gctaacatca gcaaaccccg tgtaatcgtc tctgcggctt
     3721 cctgcttcgt ttctggcagt cctgaaggcg tgaccagcgc ccgccggttc tccgggtcgt
     3781 tcggatcatg tagccccagc ctgccgttga ccactgtctg ccacgcatcg atgcgcggcc
     3841 ggtcggcacg atcgtaatac ggctggaggc gtttccccgt cagtaattcg gtattgggga
     3901 tcagaaaatt cagctcaaga cgacccttgt ctgcgtgttc cacccacaga atgctgtact
     3961 ggtctttatc gagtccgggc atcagaaccc gctcaaagct ggccatcagt ttttcacgct
     4021 gacccggcgg caggtccgcc tccgcgaatg acagcacccc ggaggtatat tttttcacat
     4081 acggcgacgc atcaatcagc tcccggactt cttccggctt cccctgcagg acgctggcac
     4141 cttcacgctg ccggtcttta cccagaagat aatccacagg accggcgccc ccgccgcgac
     4201 cccggggatg gaatttaaca atcatcgtcc ggcccttttt ccagtacggc atgccgcaac
     4261 cgttccagac cggcatcgat cgccatcagc gctgccacga tctgcacccg gtcatgaccg
     4321 gcaccaccgg cgttcacttt ccgggcgatc tggttcaggt tattgcccat gccggcaagc
     4381 tgacgcagca gcgcgggcga aatcgaggga agcctgccgg cgcgtgtcgg tttctcatca
     4441 aggcaggtct ggcgcatcca cgccgccagt tgttttccgt cgcaccgctc aagcaaccgc
     4501 cggtgttcgt cttccgtcac ccacatcgtg agcatcttgt tgcgtttatc tgccagaatc
     4561 gcctcctgat aacgccgtga cggacgggaa agcctttccc ggtcggcgcg gggttggaca
     4621 agccgcaggc gcgtcagtgg ggtttcgggg cgcagccctg aaccagtcac gtagcgctag
     4681 cggagtgtat actggcttag tatgttacgg cgagatggag attcggggaa gtgcttcatg
     4741 tggcaagggg gaaaatacgg ctgcggggcg taagtgcaaa atgcaggtaa cgatgaaatg
     4801 acgcctcctc gctcactcgg tcgctgcgct cctgccgtga gactgcggcg ggcgttacca
     4861 gctcacgaag gacgagataa cgagatcgcg ctcaagtcag gaaagtcagg aaagtcagga
     4921 aagtcaggaa agtcaggaaa gtcaggaaaa aggatgcggc gttgccgttt ttccataggc
     4981 tccgcccccc tgacaagcat cacaaaatct gacgctcaaa tcagtggtgg cgaaacccga
     5041 caggactata aagatcccag gcgtttcccc ctggtagctc cctcgtgcgc tctcctgttc
     5101 ctgcctttcg gtttaccggt gtcattccgc tgttatggcc gcgtttgtct cattccacgc
     5161 ctgacactca gttccgggta ggcagttcgc tccaagctgg actgtatgca cgaacccccc
     5221 gttcagtccg actgctgcgc ctt
//
