LOCUS       NZ_CP011592             5410 bp    DNA     circular CON 08-JAN-2024
DEFINITION  Klebsiella oxytoca strain CAV1099 plasmid pCAV1099-5410, complete
            sequence.
ACCESSION   NZ_CP011592
VERSION     NZ_CP011592.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN03733663
            Assembly: GCF_001022295.1
KEYWORDS    RefSeq.
SOURCE      Klebsiella oxytoca
  ORGANISM  Klebsiella oxytoca
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Klebsiella.
REFERENCE   1  (bases 1 to 5410)
  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  JOURNAL   Unpublished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 5410)
  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                   :: 96X
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/08/2024 02:10:53
            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)                     :: 6,411
            CDSs (total)                      :: 6,293
            Genes (coding)                    :: 6,172
            CDSs (with protein)               :: 6,172
            Genes (RNA)                       :: 118
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 86
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 121
            CDSs (without protein)            :: 121
            Pseudo Genes (ambiguous residues) :: 0 of 121
            Pseudo Genes (frameshifted)       :: 55 of 121
            Pseudo Genes (incomplete)         :: 73 of 121
            Pseudo Genes (internal stop)      :: 25 of 121
            Pseudo Genes (multiple problems)  :: 23 of 121
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP011592.1.
            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..5410
                     /organism="Klebsiella oxytoca"
                     /mol_type="genomic DNA"
                     /strain="CAV1099"
                     /isolation_source="Perirectal"
                     /host="Homo sapiens"
                     /db_xref="taxon:571"
                     /plasmid="pCAV1099-5410"
                     /geo_loc_name="USA:Virginia"
                     /lat_lon="38.14 N 78.45 W"
                     /collection_date="2009-04"
                     /collected_by="Clinical Microbiology University of Virginia
                     Health System"
     gene            complement(129..410)
                     /locus_tag="AB184_RS00005"
                     /old_locus_tag="AB184_00005"
     CDS             complement(129..410)
                     /locus_tag="AB184_RS00005"
                     /old_locus_tag="AB184_00005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000594459.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="type II toxin-antitoxin system RelE/ParE family
                     toxin"
                     /protein_id="WP_000594459.1"
                     /translation="MIKNIKHKGLRSFAENGNTAGIQPHLAKKLRMILTTLSTATCLQD
                     IVDVRALGCHPLKGERKGEFSVEVNGNWRVVFKVEEPNVLDVDLEDYH"
                     /name="type II toxin-antitoxin system RelE/ParE family
                     toxin"
     gene            748..1041
                     /locus_tag="AB184_RS00010"
                     /old_locus_tag="AB184_00010"
     CDS             748..1041
                     /locus_tag="AB184_RS00010"
                     /old_locus_tag="AB184_00010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000609270.1"
                     /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="HigA family addiction module antitoxin"
                     /protein_id="WP_000609279.1"
                     /translation="MINLYDPVHPGEFIREMFMEPFEIPAAELADKLEVSQSALSRLLN
                     GKTDLSYEMALRLSKVIGRSAESWVNMQAQYSLSKSRKTLSETLEHLHPMFP"
                     /name="HigA family addiction module antitoxin"
     gene            complement(2573..2788)
                     /locus_tag="AB184_RS33360"
     CDS             complement(2573..2788)
                     /locus_tag="AB184_RS33360"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137422.1"
                     /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_000137422.1"
                     /translation="MTELEKQLLSALEQLQQDYSQRLDEWESAFAEWRSMCGLMQRENA
                     VLNERVSDLSTQVLSLSEQLRRLSGN"
                     /name="MbeD family mobilization/exclusion protein"
     gene            complement(2795..3286)
                     /locus_tag="AB184_RS33365"
     CDS             complement(2795..3286)
                     /locus_tag="AB184_RS33365"
                     /inference="COORDINATES: protein motif:HMM:NF016710.4"
                     /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_045342089.1"
                     /translation="MSSLLTLAKDLEQQSKAQQQSTGEMLKAAFSEHEQSVRAELSASA
                     RRISDAILAHEQSMSEAMEKNRRSVLRTAGRTWLTILMVSALLIGTSGSILWWQGQQIT
                     DNYTHLRQQEDTLAKMTARTWGVRYQESSDGRRFLILPPGIQTEAIPYDGTTWIRLKQE
                     "
                     /name="MbeB family mobilization protein"
     gene            complement(<3321..4025)
                     /locus_tag="AB184_RS34755"
                     /pseudo=""
     CDS             complement(<3321..4025)
                     /locus_tag="AB184_RS34755"
                     /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(3964..4287)
                     /locus_tag="AB184_RS00025"
                     /old_locus_tag="AB184_00025"
     CDS             complement(3964..4287)
                     /locus_tag="AB184_RS00025"
                     /old_locus_tag="AB184_00025"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000957083.1"
                     /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_171853543.1"
                     /translation="MLTMWVTEDEHRRLLERCDGRQLAAWMRQICLDEKPARSGKLPSL
                     SPALLRQLAGMGNNLNQIARRVNAGGGTGHDRVQIVAALMTIDAGLERLRHAVLEKGTD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     Typing          complement(4401..4574)
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="98.857"
                     /coverage="100.0"
                     /evalue="5.54e-83"
     Typing          4498..5085
                     /name="rep_cluster_2335"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="91.54"
                     /coverage="97.0"
                     /evalue="0.0"
     Typing          complement(2482..3974)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="96.2"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 cacaaagcaa agggaacaac aaaatcataa aggctctcat aaatcctcca gaggtactta
       61 tttttgaata aagtccctaa tccatccata ttgccactag gatggattag taacttactt
      121 attgattact aatggtaatc ttcaagatca acgtctaaga cgtttggttc ttccaccttg
      181 aaaaccaccc tccagtttcc gttaacctct acggaaaact cacctttacg ttcacctttt
      241 agggggtgac accccagcgc ccttacatcc acaatatctt gaagacatgt tgcggtgctt
      301 agcgtagtca atatcatgcg aagttttttc gctaagtgag gctgaattcc ggcggtgtta
      361 ccgttttcag caaaactccg aagcccttta tgctttatgt tttttatcat caatcatctc
      421 cataaaattt tcgtcgatat ctatctctat aaacagaaaa caatttgaca gcgtccattt
      481 gaaccccttg cattattaaa ataattgacg taactttgtc tctgaggtcg attacctcgt
      541 ttgacttcca agagcgctaa ccgtacaata tggcgccttg aaaaagtcgg taaagacacc
      601 atatcagcgg tagctttctg ctccaccgag catcctaaag cttactgctt tttttgtcaa
      661 taacagacac ttgcgtattg tgcaatgcgc aacgcgaaag aaacaaaatg ttttgtgtaa
      721 tcaaatacaa aaccaataga ggaaggcatg ataaatcttt acgatcctgt acaccccggt
      781 gaattcatca gggaaatgtt catggaaccg ttcgaaatac ctgccgcaga gttagctgat
      841 aagcttgaag tatcacaatc tgcattaagt agattgctca atggaaaaac tgatcttagt
      901 tatgagatgg ctcttcgact atctaaagtt ataggccgct ctgcagagtc gtgggttaat
      961 atgcaggctc agtacagcct ctcgaaaagt cgtaaaactt tatccgagac gctagaacac
     1021 cttcatccga tgtttccata agtaaaagcc cgctcgtgcg ggctttttgc cgtaaaaccc
     1081 ccgcatacct acctttagtt tgatttttag ttcagttctt agatcttgaa atgattgttg
     1141 tttgaacacc aataagatgc ccatacaagg ctctaaaaag gagaacaaaa tggcaattta
     1201 tgtaggacca catggcaaaa taggtcgtga tggtggctca ttccaagaat gtgacatcaa
     1261 cacaaacact catactgtta cccgcaaata tggacgatac tgcaccattc gcgataatga
     1321 gttcgcacca ccaacgagcg cacctggcag gtactggcta cagatctacc gaaccccaga
     1381 caacactgag taacagaagc gccagtaacg acaaagcccg cataagcggg ctttgtctct
     1441 tacaaaattc ctcgtcgtcg caattcagct tctatcgcct cacatgcggc atccacaatc
     1501 tccgtgttgt agtacctgga catgccactg ctaatgatat cgtccattag ggcacggtta
     1561 tgagctaagg tacgtcgtaa gtattcaggg gtatgttgct ccatcggatt ctccttttca
     1621 tgactgagca ttattgctta cctgtattta tccccgtcag tgctggtcac gttgaaaagc
     1681 cctaaaaaac cactttttta gctgccttaa tcattgaaaa atggcactta aatccacatc
     1741 tatcgcgctg gggaaatcgc ccgcacacag ccactgataa aataaaagtg agataaaatg
     1801 gatccaatgg ataagatttg cgatgtttgt gccctccctg ccagcgcctg tacctgtggc
     1861 ttctgcgatg actgcaacga gaagctggca gactgcgtct gtgagcgctg cagcgattgt
     1921 ggaaatttag atgagcactg tagctgctca cgttgcgacg agtgcggtga aaaactggat
     1981 gagtgcatat gtgaggagtg cgaagaatgt ctccgcagtc cacatgattg tatctgcgaa
     2041 aactgaccta aggccgaatt ctctttcaag agcgaccggg acggtcgctc ttatttacca
     2101 taacatccgt tgggcgcacc gctgaaacgg ggttggctgc gtttccggtg ccagacgcga
     2161 gaaagtggcg acagacataa cgaaaaaaca ccagaaacgc agccgctgaa tattacactg
     2221 gtgcatagtc atgcagccag atgcatggat gttaaagtca cactaaaatc cgcgccaatg
     2281 ccttaaaaac cgacaaatgc ttctccagcc agtcccacag ctccgccgcc agatacaggc
     2341 agttaagcaa tgattcaata agatttaaca gcttcatttc ccgctcctga ataagtcgtg
     2401 acctttttga tcacgaacct atttagcggg agaaataaga gcccctcttc gtgcgggttg
     2461 tcagctgcct ggatggttta aagtgtcggc ccgcggtagg ttttctgcgg ctggcgctcc
     2521 agctccagtg ttttctgata ctcattctcc ctctgccgga gctcgatggc attcagttcc
     2581 cggacaagcg gcgcagctgc tcgcttaaac tcagcacctg cgtgctcaag tccgacacgc
     2641 gctcgttcag caccgcgttc tcccgttgca taagcccaca catgctccgc cattccgcga
     2701 aggcgctctc ccattcgtcc agcctttgcg agtagtcctg ctgtagctgc tctaatgcgc
     2761 tcagcaactg cttttccagc tctgtcattt tcagctactc ctgtttcagg cggatccatg
     2821 tcgtcccgtc gtaagggatg gcttcggttt gtatccccgg cggcaggata agaaacctcc
     2881 ggccgtcgct gctctcctga tagcgcactc cccacgtccg ggcggtcatt ttcgccaggg
     2941 tatcttcctg ctgacgaaga tgcgtgtaat tgtcggttat ctgctgcccc tgccaccaca
     3001 gaatgctccc gctcgtgccg atcagcagcg ctgacaccat caggatggtg agccatgtcc
     3061 gcccggcagt ccgcagtacg ctccgccggt ttttctccat cgcctcgctc atactctgct
     3121 cgtgggcgag gatggcgtcg ctgattctcc tcgcgcttgc gctcagttcc gctctgacag
     3181 actgctcgtg ctcgctgaat gcggctttca gcatctcgcc ggtactctgc tgctgcgctt
     3241 tcgattgctg ctctaagtcc ttcgccagcg ttaaaagact gctcatagat ggctcccttc
     3301 agtcggatgt ttcgcccccc gtccgggtcg gcaatgctga tactgctttt cgtggtgcgc
     3361 accacctcaa aacctgcacc ttcaagagtg tcagtgacat cctgacggct tttcagctcc
     3421 ccggacgaag caagggtcag cagtccccgg gtaatggctt ctgcggcctc ctgcttcgtt
     3481 ttcggcagcc cggacggcgt gaccagagcc cggcggtttt ccggcgcgtt cgggtcgtgc
     3541 agccccagtc tgccgttcac gatagtctgc caggcatcga tgcgcggccg gtcggcgcgg
     3601 tcgtagtaag gctggagccg cctgccggtc agcagctcgg tattggggat cagaaagttc
     3661 agctccagac gccccttgtc cgcgtgctcc acccacagaa tgctgtactg atctttatcg
     3721 agtccgggca tcagaacccg ctcgaagctg gccatcagtt tttcccgctg gccgggaggc
     3781 agatcggcct ccgcaaacga cagaacgccg gaggtgtatt tcttaacgta aggcgacgcg
     3841 tcaatcagct cccggacttc ttccggcttc ccctgcagga cggtggcgcc ttcacgctgc
     3901 cggtctttac ccagcagata gtccaccggc ccggcgccac cgccgcggcc gcgcggatga
     3961 aatttaacga tcatcgtccg ttcctttctc aagaacggcg tgccgcagcc gctcaaggcc
     4021 ggcatcgatg gtcatcagcg ccgccacaat ctgtaccctg tcatggccgg tgccgccgcc
     4081 ggcgttaaca cggcgggcta tctggttcag gttattgccc atgccggcaa gctggcgcag
     4141 cagcgccggc gagagtgagg ggagctttcc ggaacgtgcc ggcttttcgt ccaggcagat
     4201 ctgccgcatc cacgccgcca gctgcctgcc gtcacagcgc tcgagcagcc gccggtgctc
     4261 gtcctccgtc acccacatgg tgagcatctt gctccgtttc tctgacaaac cggcctcctg
     4321 ataacgccgg gacgggcggg aaagcctttc ccggtcggcg cggggttgga caagccgcag
     4381 gcgcgtcagg cttttggcgg gtttcggggc gcagccctga accagtcacg tagcgctagc
     4441 ggagtgtata ctggcttact atgttggcac ggatgagggt gtcagtgaag tgcttcatgt
     4501 ggcaggagaa aaaaggcggc accggtgcgt cagcagaata tgtgatacag gatatattcc
     4561 gcttcctcgc tcactgactc gctgcgctcg gtcgttcggc tgcggcgagc ggaaatggct
     4621 tacgaacggg gcggaaattt cctggaggat gccaggaaga agcttaacag ggaagcgaga
     4681 aggccacgac aaagccgttt ttccataggc tccgcccccc tgacaagcat cacgaaatct
     4741 gacgctcaaa tcagtggtgg cgaaacccga caggactata aagataccag gcgtttcccc
     4801 ctggtggctc cctcgtgcgc tctcctgttc ctgcctttcg gtttaccggt gtcactccgc
     4861 tgttatggcc gcgtttatct cattccacgc ctgacactca gttccgggaa ggcagttcgc
     4921 tccaagctgg actgtatgca cgaacccccc gttcagtccg accgcagcgt cttatccggt
     4981 aactatcgac ttgagtccaa cccggaaaga cacaacaaaa cgccactggc tgcggccatt
     5041 ggtaagaggg tgtacaagag attactgatg cagagttctt gaagtcagag ccatactgag
     5101 gctaaactgg aaggacagaa tttggtttca gcggtcttgt acaccctgtt accacggttc
     5161 agaagttccc caacttactg aaccctcgaa aaaaccgcct ccccaggcgg ttttttcgtt
     5221 tcgaacataa gatacgcttt gtcgatttaa tcagtcaagg aagaaccctg aaagcctcaa
     5281 tcgcttacag aattattctt gttagagaca tgtttctgca ccgtatcaac accagtacac
     5341 aaaacagctg caaacaggaa ccatccccac ccatctaggc cacgaacagc aagaacccca
     5401 gcaatgacta
//
