LOCUS       NZ_CP027040             5234 bp    DNA     circular CON 05-JAN-2024
DEFINITION  Klebsiella pneumoniae strain 16_GR_13 plasmid unnamed, complete
            sequence.
ACCESSION   NZ_CP027040
VERSION     NZ_CP027040.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN04868736
            Assembly: GCF_001701835.2
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5234)
  AUTHORS   Pitt,M.E., Nguyen,S.H., Duarte,T.P.S., Blaskovich,M.A.T.,
            Cooper,M.A. and Coin,L.J.M.
  TITLE     Evaluating the Resistome of Extensively Drug-Resistant Klebsiella
            pneumoniae via MinION Direct RNA Sequencing
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5234)
  AUTHORS   Pitt,M.E., Nguyen,S.H., Duarte,T.P.S., Blaskovich,M.A.T.,
            Cooper,M.A. and Coin,L.J.M.
  TITLE     Direct Submission
  JOURNAL   Submitted (21-FEB-2018) Institute for Molecular Bioscience, The
            University of Queensland, Carmody Road, Brisbane, Queensland 4067,
            Australia
REFERENCE   3  (bases 1 to 5234)
  AUTHORS   Pitt,M.E., Elliotta,A.G., Cao,M.D., Ganesamoorthy,D., Karaiskos,I.,
            Giamarellou,H., Abboud,C.S., Cooper,M.A. and Coin,L.
  TITLE     Direct Submission
  JOURNAL   Submitted (04-MAY-2016) Institute for Molecular Biosience, The
            University of Queensland, 306 Camordy Rd, St Lucia, Brisbane,
            Queensland 4072, Australia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 11-DEC-2017
            Assembly Method                   :: Unicycler v. 0.3.1
            Genome Representation             :: Full
            Expected Final Version            :: No
            Genome Coverage                   :: 101x
            Sequencing Technology             :: Illumina MiSeq/ ONT MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/04/2024 22:01:34
            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)                     :: 5,832
            CDSs (total)                      :: 5,707
            Genes (coding)                    :: 5,568
            CDSs (with protein)               :: 5,568
            Genes (RNA)                       :: 125
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 12
            Pseudo Genes (total)              :: 139
            CDSs (without protein)            :: 139
            Pseudo Genes (ambiguous residues) :: 0 of 139
            Pseudo Genes (frameshifted)       :: 62 of 139
            Pseudo Genes (incomplete)         :: 76 of 139
            Pseudo Genes (internal stop)      :: 20 of 139
            Pseudo Genes (multiple problems)  :: 18 of 139
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP027040.1.
            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..5234
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="16_GR_13"
                     /isolation_source="Stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="unnamed"
                     /geo_loc_name="Greece: Athens"
                     /lat_lon="38.03 N 23.79 E"
                     /collection_date="2013-11-08"
                     /collected_by="Hygeia General Hospital"
                     /genotype="ST11"
     gene            402..743
                     /locus_tag="A6D82_RS29710"
                     /old_locus_tag="A6D82_029975"
     CDS             402..743
                     /locus_tag="A6D82_RS29710"
                     /old_locus_tag="A6D82_029975"
                     /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            952..>1380
                     /locus_tag="A6D82_RS31605"
                     /pseudo=""
     CDS             952..>1380
                     /locus_tag="A6D82_RS31605"
                     /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            1421..1918
                     /locus_tag="A6D82_RS31080"
     CDS             1421..1918
                     /locus_tag="A6D82_RS31080"
                     /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            1925..2140
                     /locus_tag="A6D82_RS31085"
     CDS             1925..2140
                     /locus_tag="A6D82_RS31085"
                     /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            2592..3842
                     /locus_tag="A6D82_RS29720"
                     /old_locus_tag="A6D82_029985"
     CDS             2592..3842
                     /locus_tag="A6D82_RS29720"
                     /old_locus_tag="A6D82_029985"
                     /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            3835..4644
                     /locus_tag="A6D82_RS29725"
                     /old_locus_tag="A6D82_029990"
     CDS             3835..4644
                     /locus_tag="A6D82_RS29725"
                     /old_locus_tag="A6D82_029990"
                     /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(4864..4995)
                     /locus_tag="A6D82_RS31530"
                     /old_locus_tag="A6D82_029995"
     CDS             complement(4864..4995)
                     /locus_tag="A6D82_RS31530"
                     /old_locus_tag="A6D82_029995"
                     /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          143..318
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="90.449"
                     /coverage="81.0"
                     /evalue="5.74e-59"
     Typing          complement(4868..5232)
                     /name="rep_cluster_2373"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.368"
                     /coverage="84.0"
                     /evalue="3.79e-163"
     Typing          734..2256
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.803"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ggcaacgccg catccttttt cctgactttc ctgactttcc tgactttcct gactttcctg
       61 acttgagcgc gatctcgtta tctcgtcctt cgtgagctgg taacgcccgc cgcagtctca
      121 cggcaggagc gcagcgaccg agtgagcgag gaggcgtcat ttcatcgtta cctgcatttt
      181 gcacttacgc cccgcagccg tattttcccc cttgccacat gaagcacttc cccgaatctc
      241 catctcgccg taacatacta agccagtata cactccgcta gcgctacgtg actggttcag
      301 ggctgcgccc cgaaacccca ctgacgcgcc tgcggcttgt ccaaccccgc gccgaccggg
      361 aaaggctttc ccgtccgtca cggcgttatc aggaggcgat tctggcagat aaacgcaaca
      421 agatgctcac gatgtgggtg acggaagacg aacaccggcg gttgcttgag cggtgcgacg
      481 gaaaacaact ggcggcgtgg atgcgccaga cctgccttga tgagaaaccg acacgcgccg
      541 gcaggcttcc ctcgatttcg cccgcgctgc tgcgtcagct tgccggcatg ggcaataacc
      601 tgaaccagat cgcccggaaa gtgaacgccg gtggtgccgg tcatgaccgg gtgcagatcg
      661 tggcagcgct gatggcgatc gatgccggtc tggaacggtt gcggcatgcc gtactggaaa
      721 aagggccgga cgatgattgt taaattccat ccccggggtc gcggcggggg cgccggtcct
      781 gtggattatc ttctgggtaa agaccggcag cgtgaaggtg ccagcgtcct gcaggggaag
      841 ccggaagaag tccgggagct gattgatgcg tcgccgtatg tgaaaaaata tacctccggg
      901 gtgctgtcat tcgcggaggc ggacctgccg ccgggtcagc gtgaaaaact gatggccagc
      961 tttgagcggg ttctgatgcc cggactcgat aaagaccagt acagcattct gtgggtggaa
     1021 cacgcagaca agggtcgtct tgagctgaat tttctgatcc ccaataccga attactgacg
     1081 gggaaacgcc tccagccgta ttacgatcgt gccgaccggc cgcgcatcga tgcgtggcag
     1141 acagtggtca acggcaggct ggggctacat gatccgaacg acccggagaa ccggcgggcg
     1201 ctggtcacgc cttcaggact gccagaaacg aagcaggaag ccgcagagac gattacacgg
     1261 ggtttgctga tgttagcctc atcaggagag ctgaaaacgc gtgatgacgt cacaggggcg
     1321 ctcacagcgg ccggttttga ggtggtcaga accacaaaaa acagtatcag cattgccgac
     1381 ccggacgggg ggcgaaatat ccgactgagg ggagccattt atgagcagtc ttttaacggc
     1441 ctcgagggac ttcgaggaga aatcgaaagc acagcagcag cttaccgaag agaggctgaa
     1501 agccgcattc agcaagcacg agaacgttgt caaatcggaa ctgaacgcaa gcgcgaagag
     1561 aatcaacgac gccatcagcg cccacgaaca ggggatgaac gcggcgatgc agtcgaaccg
     1621 gctgagcgtg ctgcgaatgg tcgggcggac gtggctgacc atcaccatgg tgtcagggct
     1681 gctgttcgcc agcctgagcg gggtgctgtg gtaccagggg aaccggatag cggcgaacct
     1741 ggcggaaatc aggcagcaga gagatacgct gtcgaaactg cacatgcaga cgtggggcgt
     1801 gacctatctg gagaaccgca acggacggtt tctggtgctg ccggagggga tgaaagccga
     1861 aacgggccgg acggtggaca acaagacgcg gaacgcggtg aagctggtac gggagtagag
     1921 cagaatgacg gaactggaaa aacaattgtt gagcgcgtta gagcagctac agcaggacta
     1981 ctcgagaagg ctggacgagt gggagagcgc cttcgaggaa tggcggaaga tgtctggtct
     2041 tatgcaacgg gagaacgcgg cgctgagcga gcgcgtgtcg ggcttgagca ggcaggtgca
     2101 gagtttgagc gagcagctgc gccggttatc gacaggctga atgagattga gcaacagcga
     2161 tacgggcaaa caacggaaaa ggaaccagag aagacagcag atctggtacc ggaacggcaa
     2221 cgcacattat ctcatggtga cagggagtat ggagactgat aaacgcccgt ctcaggtggc
     2281 ctgagcgtga cggggatcat ggccattttc tgcgatttca gcacacagag agtctttttt
     2341 aaccgaaatc accggctatg cagtgatgtg aataagtgat gcatatgcgt aaaataaatc
     2401 aggtgcgttt ctggtggttt tcggtgtact tgccaccacc ttttgcccgt cagccatcag
     2461 aaacgccctg agtgcctccg gcgcggtgcg ggtaagagat gttatgttca atcgaaatca
     2521 gaaaaacgat cggtaaagcg atcgtttttc tgatagcatc atgttgattt tatataacgt
     2581 gggtgtaaag aatgactaga ccgattgctg ttgatttatt tgctggagcg ggtgggctga
     2641 gtctcggttt cgagcaagct ggctttgata taatggcatc agttgaaata gatccaatac
     2701 attgctctgc tcacaaatat aactttccta tgtgcaaaac gatatgtaga agtgttgttg
     2761 atgttaccgg agaatacgtt agggaagttt caggtattgg tgagaaagag attgatgtag
     2821 tgatcggagg cgctccctgc caaggctttt cattaatagg aaaacgcgcg cttgatgatg
     2881 atagaaacaa actggtctat cactatgtac ggctggttct tgagctaaag cctaaatact
     2941 ttgtttttga aaatgtaaaa gggttgacgg ttggtaagca taagcagttt ttagtagaga
     3001 taatggatgc atttaaagat ggcgggtacg acgttgtaag cgattataaa gtgctaaacg
     3061 cagctgatta tggagttcct caagatcgcc gtcgtctttt cttaatgggg ggaaggaaag
     3121 gaattgctct gccatcatac cctgagccat tatccattag aacaacggtt ggggacgcta
     3181 ttggggatat tcctgatgcg gaaaaatatc ctgagctatg gggtagagat tgggtttatg
     3241 ctaaatttgg tgagcaatca ctatactcat cctatttgca tggcgtagga aaagatccta
     3301 gtgattttag ctacccaagg atttttaata aagacaaatt aacgtgttct ttactgacag
     3361 atcactctga catttctaga gggcggtttg ttgaaacttt gcctgacacg gtagaaccaa
     3421 tcagcaggtt taaaaagctc tcgatgaatg ggctatgtaa tactttaagg gcaggaacag
     3481 caagtgacag aggtgctttt acatctcctc gtcctataca tccgatctat cctagggtca
     3541 tcacggtcag agaggcagca agactgcatt catatcctga ttggttcaga tttcatgtga
     3601 ctaagtggca tggatttaga caggtcggta atagtgttcc tcctatgcta gctagaagtg
     3661 ttggcttgca gattatgaag gttcttggtg ttacgccaaa aaaaccaacg aagaaaatca
     3721 aactcggtga tgaaagtttg gttgctattt ctatgtccga tgctgcatct atgtttggtg
     3781 tgtcatcaaa tgtaattgct aagagaataa aaaatagtaa caaggaggtt gtttgtgagt
     3841 aaggataaaa aagaaaggtc caaaaataga taccatcagt tggtagaaaa gatatttttc
     3901 gataaatatg ttgatggtga cttagaggtt ttgtttgaaa ggttagatat aaacagtgct
     3961 gcaaaagatt taggtataga actcccatct aatgttggtg atgttatata ttcaatcaga
     4021 tttagaacgc ctatgccaga aagtattctg ttgactcagc cagaaggtaa ggagtggatt
     4081 attgagctgg ctggtaggtc aaagtatcga tttagattag taactattag taggattttg
     4141 ccaaatccta atatggtggc aataaaaatt ccagacaata ccccggagat aattacaggt
     4201 tattctttag acgacgagca ggcattgctg gcgaaggtga gatataaccg gctaatagat
     4261 atatttctag gtataaccac atattcttta cagaatcatt taagaactac ggtgaaggga
     4321 attggtcaaa tagagatcga tgaactttat gtaggtatag ataaatacgg ttgccattat
     4381 ataataccag ttcaagcaaa aggtgggaca gatcaaatat caatggtgca aacatcgcaa
     4441 gatacagcgt ggtgtgaaca aaaataccca aatgttagat gtagagctat ttccgctcag
     4501 tttgtttcga gcgatttgat tgcactgttt gagctaaaga tagacgaagg acaagtgaaa
     4561 ttgattgagg aaaggcatta caaactggtt ccggtaaaag agttagatag ctctgacatc
     4621 tcaaactacc gcatgtctgt ataatttctg agaggatctt cttgagatcc tttcgttcta
     4681 gccgtaatct cctaagccgt aaacaaaaaa accaccgcta ccaacggtgg ttcgtttgcc
     4741 ggaatttaga gctaccaact ctttcttccg aaggtaactg gctttcacgg agcgcagata
     4801 ccaaaactgt cctttcagtg tagccgtagt caggccacca cttcaagaac tctgtagata
     4861 actctactcc gctccgtgaa tccgattacc agtggctgct gccagtggcg cttttgcatg
     4921 tcttttcggg ttggactcaa gacgatagtt accggacaag gcgcagcagt cggactgaac
     4981 ggggggttcg tgcatacagt ccagcttgga gcgaactgcc tacccggaac tgagtgtcag
     5041 gcgtggaatg agacaaacgc ggccataaca gcggaatgac accggtaaac cgaaaggcag
     5101 gaacaggaga gcgcacgagg gagctaccag ggggaaacgc ctgggatctt tatagtcctg
     5161 tcgggtttcg ccaccactga tttgagcgtc agattttgtg atgcttgtca ggggggcgga
     5221 gcctatggaa aaac
//
