LOCUS       NZ_CP011643             2927 bp    DNA     circular CON 08-JAN-2024
DEFINITION  Klebsiella pneumoniae strain CAV1596 plasmid pCAV1596-2927, complete
            sequence.
ACCESSION   NZ_CP011643
VERSION     NZ_CP011643.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN03024583
            Assembly: GCF_001022235.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella pneumoniae
  ORGANISM  Klebsiella pneumoniae
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 2927)
  AUTHORS   Sheppard,A.E., Stoesser,N., Wilson,D., Sebra,R., Kasarskis,A.,
            Anson,L., Giess,A., Pankhurst,L., Vaughan,A., Grim,C.J., Cox,H.,
            Yeh,A., Sifri,C.D., Walker,S., Peto,T.E., Crook,D.W. and
            Mathers,A.J.
  TITLE     Rapid spread of a carbapenem resistance gene driven by multiple
            levels of genetic mobility
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 2927)
  AUTHORS   Sheppard,A.E., Stoesser,N., Wilson,D., Sebra,R., Kasarskis,A.,
            Anson,L., Giess,A., Pankhurst,L., Vaughan,A., Grim,C.J., Cox,H.,
            Yeh,A., Sifri,C.D., Walker,S., Peto,T.E., Crook,D.W. and
            Mathers,A.J.
  TITLE     Direct Submission
  JOURNAL   Submitted (02-JUN-2015) University of Oxford, John Radcliffe
            Hospital, Oxford OX39DU, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP3 v. 2.2.0
            Genome Coverage                   :: 90X
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/08/2024 01:50:34
            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)                     :: 5,580
            CDSs (total)                      :: 5,456
            Genes (coding)                    :: 5,342
            CDSs (with protein)               :: 5,342
            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)              :: 114
            CDSs (without protein)            :: 114
            Pseudo Genes (ambiguous residues) :: 0 of 114
            Pseudo Genes (frameshifted)       :: 43 of 114
            Pseudo Genes (incomplete)         :: 72 of 114
            Pseudo Genes (internal stop)      :: 16 of 114
            Pseudo Genes (multiple problems)  :: 16 of 114
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP011643.1.
            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..2927
                     /organism="Klebsiella pneumoniae"
                     /mol_type="genomic DNA"
                     /strain="CAV1596"
                     /isolation_source="Perirectal"
                     /host="Homo sapiens"
                     /db_xref="taxon:573"
                     /plasmid="pCAV1596-2927"
                     /geo_loc_name="USA:Virginia"
                     /lat_lon="38.14 N 78.45 W"
                     /collection_date="2012-04"
                     /collected_by="Clinical Microbiology University of Virginia
                     Health System"
     gene            complement(join(2879..2927,1..95))
                     /locus_tag="AB187_RS31325"
     CDS             complement(join(2879..2927,1..95))
                     /locus_tag="AB187_RS31325"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001326446.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_058671098.1"
                     /translation="MHEPPVQSDCCALSGNYRLESNPERHDLSPLAAATGNGFAEQRSV
                     EV"
                     /name="hypothetical protein"
     gene            511..702
                     /locus_tag="AB187_RS00010"
                     /old_locus_tag="AB187_00010"
     CDS             511..702
                     /locus_tag="AB187_RS00010"
                     /old_locus_tag="AB187_00010"
                     /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_004207910.1"
                     /translation="MTKQQKTALNMAKFIQNQSLLLLEKLNELDLDAEADLCEKLHDDA
                     EHLFRTLSSRLDSLQDGN"
                     /name="Rop family plasmid primer RNA-binding protein"
     gene            702..1124
                     /locus_tag="AB187_RS00015"
                     /old_locus_tag="AB187_00015"
     CDS             702..1124
                     /locus_tag="AB187_RS00015"
                     /old_locus_tag="AB187_00015"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:YP_005229777.1"
                     /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_022644822.1"
                     /translation="MARVSISEAARLVKVSRPTIYKMINSGKLSYTSVVKHGKDIKVID
                     VSELIRVFGSLDGVTDTVKYDVKSDAESTGINSVGLHDLQHRIALLEAENDGLKGAVKA
                     RDEHIDSLRQAMQLLEHKHEPSSPSHSPWWKFWKKS"
                     /name="helix-turn-helix domain-containing protein"
     gene            complement(1470..1712)
                     /locus_tag="AB187_RS30690"
     CDS             complement(1470..1712)
                     /locus_tag="AB187_RS30690"
                     /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(1850..2155)
                     /locus_tag="AB187_RS30205"
                     /old_locus_tag="AB187_00020"
     CDS             complement(1850..2155)
                     /locus_tag="AB187_RS30205"
                     /old_locus_tag="AB187_00020"
                     /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_058876158.1"
                     /translation="MMKVGNVREYGPTKSHLLLMVTTLPAGVGVFIYPIVEVIWGDLSL
                     LKVAGYTFLSLIVGGLLANIIVRGLSATTFGILLVNPLAMICSIAGLIVLAIQHLP"
                     /name="hypothetical protein"
     gene            complement(2212..2589)
                     /locus_tag="AB187_RS30210"
     CDS             complement(2212..2589)
                     /locus_tag="AB187_RS30210"
                     /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_110982627.1"
                     /translation="MIHNHPTWVIKSMIYRLGILSISLLTVGCVSTSNVLELGRDTYTV
                     SATADGFRDAASARQSAFKTGSEKCNSLGKKFLLTNENVANTRMGIDTTVTLYFRCLDE
                     RDSEYVRPNLQKAPDLRIESK"
                     /name="hypothetical protein"
     Typing          complement(2..353)
                     /name="rep_cluster_2373"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="95.184"
                     /coverage="82.0"
                     /evalue="1.77e-156"
     Typing          complement(2733..2927)
                     /name="rep_cluster_2374"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="83.981"
                     /coverage="93.0"
                     /evalue="9.5e-45"
ORIGIN
        1 gccagtggcg ataagtcgtg tctttccgga ttggactcaa gacgatagtt accggataag
       61 gcgcagcagt cggactgaac ggggggttcg tgcatacagt ccagcttgga gcgaactgcc
      121 tacccggaac tgagtgtcag gcgtggaatg agataaacgc ggccataaca gcggagtgac
      181 accggtaaac cgaaaggcag gaacaggaga gcgcacgagg gagccgccag ggggaaacgc
      241 ctggtatctt tatagtcctg tcgggtttcg ccaccactga tttgagcgtc cgtttctgcg
      301 atgcttgtca ggggggcgga gcctatggaa aaacggcaac gccgtggcct ttcctttttt
      361 tcctcctttg accgctcggt tttctcgagc ttttctatgc atgctcctgc cgctcgccgc
      421 agccgaacga ccggagcgta gcgactgagt gagcgaggaa gcggaaaaga gacaggtttt
      481 acactgagca ctgacgctct gaggcccttt atgacgaaac aacagaaaac ggcgctgaac
      541 atggctaaat tcatccagaa tcagtctctg ctcctgctgg agaagcttaa cgagcttgat
      601 cttgatgctg aggccgacct ttgtgagaaa ctccacgatg atgcagagca tcttttccgt
      661 acactctcct cgagactgga ttcattacag gatggtaact gatggccaga gtgtctatta
      721 gtgaagctgc acggcttgtt aaggttagtc gtcccactat ttacaagatg attaacagcg
      781 ggaagttaag ttatacctct gttgtaaagc acgggaagga tattaaagtt attgatgtat
      841 ccgagcttat tagggtgttt ggttctcttg atggtgtaac tgatactgta aaatatgatg
      901 taaaaagtga cgcagaatct acaggtatta acagcgttgg tttacatgat ttacaacata
      961 gaatcgcttt acttgaagct gaaaacgatg gtcttaaagg ggctgttaag gctcgagatg
     1021 agcatattga ttcccttcgt caggctatgc agcttctgga gcacaagcac gaaccttctt
     1081 caccatccca ttccccgtgg tggaaattct ggaaaaaatc ctgatcctgc catgcttgag
     1141 ttttcctctc cggccatccc ggagagtttc tgaaccttcc caaaaatcgc cagatctctg
     1201 aacgctcctc accactaaaa atacccacac cccacgcaaa attaaaattt tgcagattca
     1261 ttatttacaa caatgggtta atgaaaaata aatgtgcggt gatgtgttac aaagtgcaga
     1321 tccaagtcgt ggacgactct atggcgaatc gctgacgaat tgcccacgat tcatatgtga
     1381 atcacgcttt attatcatat tgttatgatg aatcgactct tgattcaatt catcactttg
     1441 ggtgtttttt gctcatggtg actcttgatt caattcacga ttcgaatcgc cggtgaatcg
     1501 tgtggtgagt cgtccggcga cttgccataa cgtgattgcc ggccgtcgac gaacccgatt
     1561 cctgaaggtg ctgaaaaccg gttttccggc tgcgccggca acgcttcacg gccacgcaat
     1621 aaattgcgtc cccgttcacc gttttcggag gagaagaacg ccggaaacag gacttcccct
     1681 ggctgaatgg tgtgaatttc cgcgctatgc acttgcgcgc atactcatgc atgccgtaaa
     1741 aacagagcct gcgcgtttct ggcgggtttt cgggtggttt gttgcctgtt ttaccggttt
     1801 cccgtcagaa acgccctgag ggcctctcag gcggtgctga taacggatgt tatggtaaat
     1861 gttggatagc aaggactatc agtccggcaa tgctacatat cattgctaat ggatttacga
     1921 gcaaaatgcc gaatgttgtc gcagataatc cgcgaacaat gatattggca agaagtccgc
     1981 caacaatgag ggataaaaag gtataaccag caactttcag taacgacaga tctccccata
     2041 tcacctctac tatcggatag ataaaaacac caacgccagc aggaagcgta gtaaccatca
     2101 acagtaaatg gcttttagtg ggaccgtact ctctgacatt tccaactttc atcatgtgtg
     2161 tgatgaatga cgatatccac cataggatca tgatcataag gaaattcata attatttact
     2221 ctcgatgcgt agatcaggtg ctttctgtag atttggtcgt acatactcgc tgtctctttc
     2281 gtcaagacaa cggaagtaga gtgttactgt ggtatctatc cccattcttg tgttagccac
     2341 gttttcgtta gtgagcagga attttttacc gaggctatta catttctcag aacctgtttt
     2401 aaaggcactt tgacgtgctg atgccgcatc tctaaaacca tcagcagttg ctgaaaccgt
     2461 atatgtatcc ctacctaact caagaacgtt gctggtagaa acacaaccaa ctgtaagcag
     2521 cgatattgat aaaataccta acctataaat cattgatttt attacccaag ttgggtgatt
     2581 gtggatcatg attatatctg ttttttttat tattaaaatc aaggggttca ataattttct
     2641 tcaaagaact ggtgtcgtgg agtggtgctg gtttcccttt gggggggaga gggatggaat
     2701 aggatcctct tgagatcctt tctgttgcgt cgtaatctct tgccctggaa acgaaaaaac
     2761 cgcccagcaa ggcggttttt tcgaaggttc ttagagcagc aactctttga accgaggtaa
     2821 ctggctttcg cagagcacag aaaccaaatt agttattaca gtgtagctgt acttcacctc
     2881 acacttcaac acttctttgt tctgcgaatc cgttaccagt ggctgct
//
