LOCUS       NZ_CP101895             5207 bp    DNA     circular CON 09-OCT-2023
DEFINITION  Klebsiella pneumoniae strain 9362 plasmid pColRNAII_9362, complete
            sequence.
ACCESSION   NZ_CP101895
VERSION     NZ_CP101895.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN29397004
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5207)
  AUTHORS   Arcari,G., Carattoli,A., Bruno,F., Polani,R., Capitani,V.,
            Menichincheri,G., Sacco,F. and Raponi,G.
  TITLE     Ceftazidime-avibactam resistance in Klebsiella pneumoniae Sequence
            Type 37: a decade of persistence and concealed evolution
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 5207)
  AUTHORS   Arcari,G., Carattoli,A., Bruno,F., Polani,R., Capitani,V.,
            Menichincheri,G., Sacco,F. and Raponi,G.
  TITLE     Direct Submission
  JOURNAL   Submitted (28-JUN-2022) Molecular medicine, Sapienza University of
            Rome, Viale di Porta Tiburtina, Rome 00182, Italy
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.4.8.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 34.5x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 10/09/2023 02:59:34
            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)                     :: 7
            CDSs (total)                      :: 7
            Genes (coding)                    :: 6
            CDSs (with protein)               :: 6
            Genes (RNA)                       :: 0
            tRNAs                             :: 0
            ncRNAs                            :: 0
            Pseudo Genes (total)              :: 1
            CDSs (without protein)            :: 1
            Pseudo Genes (ambiguous residues) :: 0 of 1
            Pseudo Genes (frameshifted)       :: 0 of 1
            Pseudo Genes (incomplete)         :: 1 of 1
            Pseudo Genes (internal stop)      :: 0 of 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP101895.1.
            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..5207
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="9362"
                     /isolation_source="blood"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pColRNAII_9362"
                     /geo_loc_name="Italy: Rome"
                     /lat_lon="41.53 N 12.30 E"
                     /collection_date="2011-03-28"
                     /collected_by="Policlinico Umberto I Hospital"
     gene            545..886
                     /locus_tag="NKY00_RS00005"
                     /old_locus_tag="NKY00_26950"
     CDS             545..886
                     /locus_tag="NKY00_RS00005"
                     /old_locus_tag="NKY00_26950"
                     /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            1095..>1523
                     /locus_tag="NKY00_RS00010"
                     /old_locus_tag="NKY00_26955"
                     /pseudo=""
     CDS             1095..>1523
                     /locus_tag="NKY00_RS00010"
                     /old_locus_tag="NKY00_26955"
                     /inference="COORDINATES: protein motif:HMM:NF015397.3"
                     /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            1564..2061
                     /locus_tag="NKY00_RS00015"
                     /old_locus_tag="NKY00_26960"
     CDS             1564..2061
                     /locus_tag="NKY00_RS00015"
                     /old_locus_tag="NKY00_26960"
                     /inference="COORDINATES: protein motif:HMM:NF016710.3"
                     /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            2068..2283
                     /locus_tag="NKY00_RS00020"
                     /old_locus_tag="NKY00_26965"
     CDS             2068..2283
                     /locus_tag="NKY00_RS00020"
                     /old_locus_tag="NKY00_26965"
                     /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            2735..3985
                     /locus_tag="NKY00_RS00025"
                     /old_locus_tag="NKY00_26970"
     CDS             2735..3985
                     /locus_tag="NKY00_RS00025"
                     /old_locus_tag="NKY00_26970"
                     /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            3978..4787
                     /locus_tag="NKY00_RS00030"
                     /old_locus_tag="NKY00_26975"
     CDS             3978..4787
                     /locus_tag="NKY00_RS00030"
                     /old_locus_tag="NKY00_26975"
                     /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(5007..5138)
                     /locus_tag="NKY00_RS00035"
                     /old_locus_tag="NKY00_26980"
     CDS             complement(5007..5138)
                     /locus_tag="NKY00_RS00035"
                     /old_locus_tag="NKY00_26980"
                     /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          286..461
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="90.449"
                     /coverage="81.0"
                     /evalue="5.74e-59"
     Typing          complement(2..173)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.402"
                     /coverage="86.0"
                     /evalue="1.9e-71"
     Typing          complement(4799..5207)
                     /name="rep_cluster_2358"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.086"
                     /coverage="99.0"
                     /evalue="1.1e-104"
     Typing          877..2399
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ataacagcgg aatgacaccg gtaaaccgaa aggcaggaac aggagagcgc acgagggagc
       61 taccaggggg aaacgcctgg gatctttata gtcctgtcgg gtttcgccac cactgatttg
      121 agcgtcagat tttgtgatgc ttgtcagggg ggcggagcct atggaaaaac ggcaacgccg
      181 catccttttt cctgactttc ctgacttgag cgcgatctcg ttatctcgtc cttcgtgagc
      241 tggtaacgcc cgccgcagtc tcacggcagg agcgcagcga ccgagtgagc gaggaggcgt
      301 catttcatcg ttacctgcat tttgcactta cgccccgcag ccgtattttc ccccttgcca
      361 catgaagcac ttccccgaat ctccatctcg ccgtaacata ctaagccagt atacactccg
      421 ctagcgctac gtgactggtt cagggctgcg ccccgaaacc ccactgacgc gcctgcggct
      481 tgtccaaccc cgcgccgacc gggaaaggct ttcccgtccg tcacggcgtt atcaggaggc
      541 gattctggca gataaacgca acaagatgct cacgatgtgg gtgacggaag acgaacaccg
      601 gcggttgctt gagcggtgcg acggaaaaca actggcggcg tggatgcgcc agacctgcct
      661 tgatgagaaa ccgacacgcg ccggcaggct tccctcgatt tcgcccgcgc tgctgcgtca
      721 gcttgccggc atgggcaata acctgaacca gatcgcccgg aaagtgaacg ccggtggtgc
      781 cggtcatgac cgggtgcaga tcgtggcagc gctgatggcg atcgatgccg gtctggaacg
      841 gttgcggcat gccgtactgg aaaaagggcc ggacgatgat tgttaaattc catccccggg
      901 gtcgcggcgg gggcgccggt cctgtggatt atcttctggg taaagaccgg cagcgtgaag
      961 gtgccagcgt cctgcagggg aagccggaag aagtccggga gctgattgat gcgtcgccgt
     1021 atgtgaaaaa atatacctcc ggggtgctgt cattcgcgga ggcggacctg ccgccgggtc
     1081 agcgtgaaaa actgatggcc agctttgagc gggttctgat gcccggactc gataaagacc
     1141 agtacagcat tctgtgggtg gaacacgcag acaagggtcg tcttgagctg aattttctga
     1201 tccccaatac cgaattactg acggggaaac gcctccagcc gtattacgat cgtgccgacc
     1261 ggccgcgcat cgatgcgtgg cagacagtgg tcaacggcag gctggggcta catgatccga
     1321 acgacccgga gaaccggcgg gcgctggtca cgccttcagg actgccagaa acgaagcagg
     1381 aagccgcaga gacgattaca cggggtttgc tgatgttagc ctcatcagga gagctgaaaa
     1441 cgcgtgatga cgtcacaggg gcgctcacag cggccggttt tgaggtggtc agaaccacaa
     1501 aaaacagtat cagcattgcc gacccggacg gggggcgaaa tatccgactg aggggagcca
     1561 tttatgagca gtcttttaac ggcctcgagg gacttcgagg agaaatcgaa agcacagcag
     1621 cagcttaccg aagagaggct gaaagccgca ttcagcaagc acgagaacgt tgtcaaatcg
     1681 gaactgaacg caagcgcgaa gagaatcaac gacgccatca gcgcccacga acaggggatg
     1741 aacgcggcga tgcagtcgaa ccggctgagc gtgctgcgaa tggtcgggcg gacgtggctg
     1801 accatcacca tggtgtcagg gctgctgttc gccagcctga gcggggtgct gtggtaccag
     1861 gggaaccgga tagcggcgaa cctggcggaa atcaggcagc agagagatac gctgtcgaaa
     1921 ctgcacatgc agacgtgggg cgtgacctat ctggagaacc gcaacggacg gtttctggtg
     1981 ctgccggagg ggatgaaagc cgaaacgggc cggacggtgg acaacaagac gcggaacgcg
     2041 gtgaagctgg tacgggagta gagcagaatg acggaactgg aaaaacaatt gctgagcgcg
     2101 ttagagcagc tacagcagga ctactcgaga aggctggacg agtgggagag cgccttcgag
     2161 gaatggcgga agatgtctgg tcttatgcaa cgggagaacg cggcgctgag cgagcgcgtg
     2221 tcgggcttga gcaggcaggt gcagagtttg agcgagcagc tgcgccggtt atcgacaggc
     2281 tgaatgagat tgagcaacag cgatacgggc aaacaacgga aaaggaacca gagaagacag
     2341 cagatctggt accggaacgg caacgcacat tatctcatgg tgacagggag tatggagact
     2401 gataaacgcc cgtctcaggt ggcctgagcg tgacggggat catggccatt ttctgcgatt
     2461 tcagcacaca gagagtcttt tttaaccgaa atcaccggct atgcagtgat gtgaataagt
     2521 gatgcatatg cgtaaaataa atcaggtgcg tttctggtgg ttttcggtgt acttgccacc
     2581 accttttgcc cgtcagccat cagaaacgcc ctgagtgcct ccggcgcggt gcgggtaaga
     2641 gatgttatgt tcaatcgaaa tcagaaaaac gatcggtaaa gcgatcgttt ttctgatagc
     2701 atcatgttga ttttatataa cgtgggtgta aagaatgact agaccgattg ctgttgattt
     2761 atttgctgga gcgggtgggc tgagtctcgg tttcgagcaa gctggctttg atataatggc
     2821 atcagttgaa atagatccaa tacattgctc tgctcacaaa tataactttc ctatgtgcaa
     2881 aacgatatgt agaagtgttg ttgatgttac cggagaatac gttagggaag tttcaggtat
     2941 tggtgagaaa gagattgatg tagtgatcgg aggcgctccc tgccaaggct tttcattaat
     3001 aggaaaacgc gcgcttgatg atgatagaaa caaactggtc tatcactatg tacggctggt
     3061 tcttgagcta aagcctaaat actttgtttt tgaaaatgta aaagggttga cggttggtaa
     3121 gcataagcag tttttagtag agataatgga tgcatttaaa gatggcgggt acgacgttgt
     3181 aagcgattat aaagtgctaa acgcagctga ttatggagtt cctcaagatc gccgtcgtct
     3241 tttcttaatg gggggaagga aaggaattgc tctgccatca taccctgagc cattatccat
     3301 tagaacaacg gttggggacg ctattgggga tattcctgat gcggaaaaat atcctgagct
     3361 atggggtaga gattgggttt atgctaaatt tggtgagcaa tcactatact catcctattt
     3421 gcatggcgta ggaaaagatc ctagtgattt tagctaccca aggattttta ataaagacaa
     3481 attaacgtgt tctttactga cagatcactc tgacatttct agagggcggt ttgttgaaac
     3541 tttgcctgac acggtagaac caatcagcag gtttaaaaag ctctcgatga atgggctatg
     3601 taatacttta agggcaggaa cagcaagtga cagaggtgct tttacatctc ctcgtcctat
     3661 acatccgatc tatcctaggg tcatcacggt cagagaggca gcaagactgc attcatatcc
     3721 tgattggttc agatttcatg tgactaagtg gcatggattt agacaggtcg gtaatagtgt
     3781 tcctcctatg ctagctagaa gtgttggctt gcagattatg aaggttcttg gtgttacgcc
     3841 aaaaaaacca acgaagaaaa tcaaactcgg tgatgaaagt ttggttgcta tttctatgtc
     3901 cgatgctgca tctatgtttg gtgtgtcatc aaatgtaatt gctaagagaa taaaaaatag
     3961 taacaaggag gttgtttgtg agtaaggata aaaaagaaag gtccaaaaat agataccatc
     4021 agttggtaga aaagatattt ttcgataaat atgttgatgg tgacttagag gttttgtttg
     4081 aaaggttaga tataaacagt gctgcaaaag atttaggtat agaactccca tctaatgttg
     4141 gtgatgttat atattcaatc agatttagaa cgcctatgcc agaaagtatt ctgttgactc
     4201 agccagaagg taaggagtgg attattgagc tggctggtag gtcaaagtat cgatttagat
     4261 tagtaactat tagtaggatt ttgccaaatc ctaatatggt ggcaataaaa attccagaca
     4321 ataccccgga gataattaca ggttattctt tagacgacga gcaggcattg ctggcgaagg
     4381 tgagatataa ccggctaata gatatatttc taggtataac cacatattct ttacagaatc
     4441 atttaagaac tacggtgaag ggaattggtc aaatagagat cgatgaactt tatgtaggta
     4501 tagataaata cggttgccat tatataatac cagttcaagc aaaaggtggg acagatcaaa
     4561 tatcaatggt gcaaacatcg caagatacag cgtggtgtga acaaaaatac ccaaatgtta
     4621 gatgtagagc tatttccgct cagtttgttt cgagcgattt gattgcactg tttgagctaa
     4681 agatagacga aggacaagtg aaattgattg aggaaaggca ttacaaactg gttccggtaa
     4741 aagagttaga tagctctgac atctcaaact accgcatgtc tgtataattt ctgagaggat
     4801 cttcttgaga tcctttcgtt ctagccgtaa tctcctaagc cgtaaacaaa aaaaccaccg
     4861 ctaccaacgg tggttcgttt gccggaattt agagctacca actctttctt ccgaaggtaa
     4921 ctggctttca cggagcgcag ataccaaaac tgtcctttca gtgtagccgt agtcaggcca
     4981 ccacttcaag aactctgtag ataactctac tccgctccgt gaatccgatt accagtggct
     5041 gctgccagtg gcgcttttgc atgtcttttc gggttggact caagacgata gttaccggac
     5101 aaggcgcagc agtcggactg aacggggggt tcgtgcatac agtccagctt ggagcgaact
     5161 gcctacccgg aactgagtgt caggcgtgga atgagacaaa cgcggcc
//
