LOCUS       NZ_CP074091             4167 bp    DNA     circular CON 10-JAN-2024
DEFINITION  Klebsiella pneumoniae subsp. pneumoniae strain MRSN752165 plasmid
            unnamed2, complete sequence.
ACCESSION   NZ_CP074091
VERSION     NZ_CP074091.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18913859
            Assembly: GCF_018310495.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae subsp. pneumoniae
  ORGANISM  Klebsiella pneumoniae subsp. pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 4167)
  AUTHORS   Martin,M.J., Corey,B.W., Sannio,F., MacDonald,U., Jones,B., Hall,L.,
            Mills,E., Stam,J., Ong,A., Kwak,Y., Bennett,J.W., Russo,T.A.,
            McGann,P.T., Lebreton,F. and Docquier,J.-D.
  TITLE     Anatomy of an Extensively Drug Resistant Klebsiella Pneumoniae
            Outbreak in Italy
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4167)
  AUTHORS   Martin,M.J., Corey,B.W., Sannio,F., MacDonald,U., Jones,B., Hall,L.,
            Mills,E., Stam,J., Ong,A., Kwak,Y., Bennett,J.W., Russo,T.A.,
            McGann,P.T., Lebreton,F. and Docquier,J.-D.
  TITLE     Direct Submission
  JOURNAL   Submitted (30-APR-2021) Multidrug-Resistant Organism Repository and
            Surveillance Network (MRSN), Walter Reed Army Institute of Research,
            503 Robert Grant Avenue, Silver Spring, MD 20910, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: 23-MAR-2021
            Assembly Method                   :: Unicycler v. v0.4.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 200.0x
            Sequencing Technology :: Illumina MiSeq; Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/10/2024 02:12:15
            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)                     :: 5,789
            CDSs (total)                      :: 5,670
            Genes (coding)                    :: 5,531
            CDSs (with protein)               :: 5,531
            Genes (RNA)                       :: 119
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 83
            ncRNAs                            :: 11
            Pseudo Genes (total)              :: 139
            CDSs (without protein)            :: 139
            Pseudo Genes (ambiguous residues) :: 0 of 139
            Pseudo Genes (frameshifted)       :: 61 of 139
            Pseudo Genes (incomplete)         :: 86 of 139
            Pseudo Genes (internal stop)      :: 26 of 139
            Pseudo Genes (multiple problems)  :: 29 of 139
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP074091.1.
            Bacteria and source DNA available from Multidrug-Resistant Organism
            Repository and Surveillance Network (MRSN), Walter Reed Army
            Institute of Research.
            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..4167
                     /organism="Klebsiella pneumoniae subsp. pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="MRSN752165"
                     /isolation_source="Surveillance"
                     /host="Homo sapiens"
                     /sub_species="pneumoniae"
                     /db_xref="taxon:72407"
                     /plasmid="unnamed2"
                     /geo_loc_name="Italy: Siena"
                     /collection_date="2019-08-01"
                     /collected_by="University of Siena"
     gene            join(4047..4167,1..71)
                     /locus_tag="KF579_RS28720"
                     /old_locus_tag="KF579_28725"
     CDS             join(4047..4167,1..71)
                     /locus_tag="KF579_RS28720"
                     /old_locus_tag="KF579_28725"
                     /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            71..472
                     /locus_tag="KF579_RS28725"
                     /old_locus_tag="KF579_28730"
     CDS             71..472
                     /locus_tag="KF579_RS28725"
                     /old_locus_tag="KF579_28730"
                     /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(818..1060)
                     /locus_tag="KF579_RS28730"
                     /old_locus_tag="KF579_28735"
     CDS             complement(818..1060)
                     /locus_tag="KF579_RS28730"
                     /old_locus_tag="KF579_28735"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_098963735.1"
                     /translation="MHSAEIHTIQPGEVLFPAFFSSENGERGRNLLRGREALPAQPENR
                     FSAPSGIGFVDGRQSRYGKSPDDSPHDSPAIRIVN"
                     /name="hypothetical protein"
     gene            complement(1426..2058)
                     /locus_tag="KF579_RS28735"
                     /old_locus_tag="KF579_28740"
     CDS             complement(1426..2058)
                     /locus_tag="KF579_RS28735"
                     /old_locus_tag="KF579_28740"
                     /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"
     gene            complement(2058..3173)
                     /locus_tag="KF579_RS28740"
                     /old_locus_tag="KF579_28745"
     CDS             complement(2058..3173)
                     /locus_tag="KF579_RS28740"
                     /old_locus_tag="KF579_28745"
                     /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(3518..3631)
                     /locus_tag="KF579_RS28745"
                     /old_locus_tag="KF579_28750"
                     /pseudo=""
     CDS             complement(3518..3631)
                     /locus_tag="KF579_RS28745"
                     /old_locus_tag="KF579_28750"
                     /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"
     Typing          complement(3519..3926)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="93.399"
                     /coverage="99.0"
                     /evalue="5.92e-171"
ORIGIN
        1 tccacgatga tgcggagcat cttttccgta cactgtcctc gagactggat gcattacagg
       61 atggtaactg atggccagag tgtctattag tgaggctgcc cgactgacgg gtaagagtag
      121 aacaacactg cacaggttaa ttaaagcagg tgacctgtcc acctgtagcg gtgagcgcaa
      181 tgcaaaaatg gtagatactt cagagctttt acgtgtcttt ggcccctttg agcaaccgaa
      241 gggtgaacac cattctggac aggtctctgg acagcgtgat acagcctctg ctgaccagag
      301 tgaacaggtg atccgtcatc tgaaacagga gattgaacac ctgaacacct tacttttgtc
      361 caaggattcg cacattgaca gcctgaaaca ggccatgctc cttcttgaaa atcaccaggc
      421 aaaattaact gaatccccgg cgccatggtg gaaattctgg aaaaaatcct gaccccgtca
      481 tgcttcagtt ttcctctccg gccatcccag ggagttcctg aaccttccca aaaatcgtca
      541 gatctctgaa cgctcctcac cactaaaaat acccacaccc cacgcaaaat taaaattttg
      601 cagattcctt atttacaaca atgggttaat gaaaaataaa tgtgcggtga tgtgttacaa
      661 agtgcagatc caagtcgtgg acgactctat ggcgaatcgc tgacgaattg cccacgattc
      721 atatgtgaat cacgctttat tatcatattg ttatgatgaa tcgactcttg attcaattca
      781 tcactttggg tgttttttgc tcatggtgac tcttgattca attcacgatt cgaatcgccg
      841 gtgaatcgtg tggtgagtcg tccggcgact tgccataacg tgattgccgg ccgtcgacga
      901 acccgattcc tgaaggtgct gaaaaccggt tttccggctg cgccggcaac gcttcacggc
      961 cacgcaataa attgcgtccc cgttcaccgt tttcggagga gaagaacgcc ggaaacagga
     1021 cttcccctgg ctgaatggtg tgaatttccg cgctatgcac ttgcgcgcat actcatgcat
     1081 gccgtaaaaa cagagcctgc gcgtttctgg cgggttttcg ggtggtttgt tgcctgtttt
     1141 accggtttcc cgtcagaaac gtcctgagtc cgttttagcg gtgcgtacaa ttatgatttt
     1201 atgttaaatt gttttaagtg aatagagaga atataactta agggagcatc ttgtgctggg
     1261 tcttttacat tagatctgca caatcattgt tttggcatct ggtgatgtct ttaggacgtt
     1321 tgagattgct gataactaaa gtgtatgatg ctttctatac gttatccggc gtttaataac
     1381 accctggtga taagccagcc cgtgaagggc tggcttgatt tggatttata tttttgaaat
     1441 aaaatctttt atttcatcaa agcaattgtc tgctgtgttt attattccat ttttcatgga
     1501 tattcctatt cttgagtcgg attctctatt gcagctaaga tagacttgta ccttagcttt
     1561 tttttcgttt gttggataag tgtactcttt gtcactcgct gagatgtcat ctttattatt
     1621 tttaattttt tcgaaaaatt ctattatgta ttcatataac gctcgagtgc ttgcgtgttc
     1681 aattatcaga tcttcaatgg caccttgctt gtcttttcct ggcattataa agaaagaaat
     1741 ttttgtattg ccattcatag ctatctcgtt atgcgagctg ggggaggaga tttgtagttc
     1801 tcgcaatgtg gcaattattg atctttctgt gtcagaaaat gatgtgtcag catctaatat
     1861 aataaaaata ctttcttttt catcgaaaga atcaatgttt ttgaatgctc taagtgcttg
     1921 ttttaatttt gattttccat ttattttttc gacaaaaaca tcggtaatgc cttgtatttc
     1981 aagtaggttg catagaaaat gaaaatcatc atcaccctca acgaaaatga tctttttgct
     2041 attatttatg tctttcatta tcttacctcc cagtcgttct caactgagta ggagaaatca
     2101 tccatattga attgtacggc tgttggtttt agggagttct tttctcttcc tagtctaata
     2161 taagcgatat cttcattttt gctatctatt tcgtttattg ctcgtatcac atcttgacta
     2221 tgagttgttg caaatatttg attgttgttt tgttttgcag atgaaattaa tgattttatt
     2281 atgtctttaa ttactgagta atgtattccg ttctcgattt catcaataag aataattgag
     2341 ttttcctgta ccagcactga gctgataaaa gataatgctc gactgatacc ctcgccaagc
     2401 attgatattt catttagctc actaaatcca atgtctaaat atatttcctt attgttacct
     2461 atcgcagata ttgctatatc tacaattctg tcatctattt tttttaagtt ttctagtatg
     2521 tcttttttcc ttttttgtgt tagtaggcta gatacatttg taattgttgc ctctttgttt
     2581 atctttctgg atgttgttat tattgttgct gtcttaaatt tataattaat cccatccctt
     2641 tcgtttttta tttcggattt tatttctacg ccatcttctt tcaattgcat agagaaaagc
     2701 ttattggaaa ccctgttttt cgcattgggt gtctcggtca catttatttt taaagagttt
     2761 actgtggcct gagaaccgat agtttgacga ggtatgtttt ggttagatag tacggtgtca
     2821 acgtttagag acaaacttga ttctaatctc tgatttgttt ctgtttcata tgtttgtgtt
     2881 acttcagagc gttcatctcg aatgactatg gacatctttt gtgatgtgtc catatcatga
     2941 aagtaactaa cccaaaatgg cttgtttttg tttatttctg ccatttcttt tctgaatgct
     3001 tgaatgttta acaaaacagc cgggtttttt acatcataaa aacaaaaaat agcatccagt
     3061 atagatgttt tcccgtagtt gtttttccca gctatgatat ttaaagtctt taattgcttt
     3121 agatatagct cattgaagca tttgaagttc tttaaactta tttcctttat catgatagcc
     3181 tctgttcgtg tttttgttat atgccatacg atttgttagt accttaataa aatgtacagc
     3241 tttcattgtg attagctaga ctttatgtca aagattaact ttgattgctt gtgttttaat
     3301 cgattttttt tactttcttc ttgagattat ctggcagcag ccgtaagctt ccggctgtga
     3361 acgaaaaaaa ccgccttggc gggcggtttt ttcgaaaggt tcagtagagt tggcgctcta
     3421 tgaaccgagg taactggctt aaagggagcg cagtcaccaa aactgttcgt ttagtttagc
     3481 tttaactggc gtataacttc aagactaact ccctaaatca gttaccagtg gctgctgcca
     3541 gtggcgcttt gtcgtgtctt tccgggttgg actcaagacg atagttaccg gattaggcgc
     3601 agcagtcgga ctgaacgggg ggttcgtgca tacagtccag cttggagcga actgcctacc
     3661 cggaactgag tgtcaggcgt ggaatgagac aaacgcggcc ataacagcgg aatgacaccg
     3721 gtaaaccgaa aggcaggaac aggagagcgc acgagggagc catcaggggg aaacgcctgg
     3781 tatctttata gtcctgtcgg gtttcgccac cactgatttg agcgtcagat tccgtgatgc
     3841 tcgtcagggg ggcggagcct atggaaaaac ggccgctgtg cggcctttcc ttctttcctc
     3901 catgcgatta ctcggttttc tcgagcgttt ctacgcatgc tcctgccgct cgccgcagcc
     3961 gaacggcagg agcgtagcga ctgagtgagc gaggaagcgg aaaagaggag atccctacac
     4021 tgaccactga cgctctgagg cctcttatga cgaaacaaca gaaaacagcg ctgaacatgg
     4081 ctaaattcat ccagaatcag tctctgctcc tgctggagaa gcttaacgag cttgatctcg
     4141 atgtcgaggc cgacctttgt gagaaac
//
