LOCUS       NZ_CP145194             3223 bp    DNA     circular CON 05-APR-2024
DEFINITION  Raoultella ornithinolytica strain CAV1817 plasmid pCAV1817-3223,
            complete sequence.
ACCESSION   NZ_CP145194
VERSION     NZ_CP145194.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN22875531
            Assembly: GCF_036789295.1
KEYWORDS    RefSeq.
SOURCE      Raoultella ornithinolytica
  ORGANISM  Raoultella ornithinolytica
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Enterobacteriaceae; Klebsiella/Raoultella group; Raoultella.
REFERENCE   1  (bases 1 to 3223)
  AUTHORS   Sheppard,A.E., Barry,K.E., Parikh,H.I., Vegesana,K., Sebra,R.,
            George,S., Sanderson,N.D., Stoesser,N., Eyre,D.W., Crook,D.W.,
            Walker,A.S. and Mathers,A.J.
  TITLE     Tn5403 promotes plasmid rearrangements and degradation of the
            Klebsiella pneumoniae carbapenemase (KPC) transposon Tn4401
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3223)
  AUTHORS   Sheppard,A.E., Barry,K.E., Parikh,H.I., Vegesana,K., Sebra,R.,
            George,S., Sanderson,N.D., Stoesser,N., Eyre,D.W., Crook,D.W.,
            Walker,A.S. and Mathers,A.J.
  TITLE     Direct Submission
  JOURNAL   Submitted (11-FEB-2024) Biological Sciences, University of Adelaide,
            Victoria Drive, Adelaide 5005, Australia
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. MAY-2015
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 29x
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_036789295.1-RS_2024_04_05
            Annotation Date                   :: 04/05/2024 15:57:41
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.7
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,754
            CDSs (total)                      :: 5,630
            Genes (coding)                    :: 5,466
            CDSs (with protein)               :: 5,466
            Genes (RNA)                       :: 124
            rRNAs                             :: 9, 8, 8 (5S, 16S, 23S)
            complete rRNAs                    :: 9, 8, 8 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 14
            Pseudo Genes (total)              :: 164
            CDSs (without protein)            :: 164
            Pseudo Genes (ambiguous residues) :: 0 of 164
            Pseudo Genes (frameshifted)       :: 54 of 164
            Pseudo Genes (incomplete)         :: 125 of 164
            Pseudo Genes (internal stop)      :: 25 of 164
            Pseudo Genes (multiple problems)  :: 36 of 164
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP145194.1.
            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..3223
                     /organism="Raoultella ornithinolytica"
                     /mol_type="genomic DNA"
                     /strain="CAV1817"
                     /isolation_source="Hospital waste water"
                     /db_xref="taxon:54291"
                     /plasmid="pCAV1817-3223"
                     /geo_loc_name="USA:Virginia"
                     /lat_lon="38.14 N 78.45 W"
                     /collection_date="2013-12-01"
                     /collected_by="Clinical Microbiology University of Virginia
                     Health System"
     gene            161..493
                     /locus_tag="LM302_RS28745"
                     /old_locus_tag="LM302_28735"
     CDS             161..493
                     /locus_tag="LM302_RS28745"
                     /old_locus_tag="LM302_28735"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008784643.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="EmrE family multidrug efflux SMR transporter"
                     /protein_id="WP_001099531.1"
                     /translation="MNTYIFLGGAIVAEVIGTTFMKYSEGFTRLWPSVGTAISYCAAFY
                     LLSQTLENIPTGIAYAIWSGAGIVLISLAGWLVSGQKLDWPAIAGMFLICVGVLVINIF
                     SKSSAH"
                     /name="EmrE family multidrug efflux SMR transporter"
     gene            complement(702..872)
                     /locus_tag="LM302_RS28750"
                     /old_locus_tag="LM302_28740"
     CDS             complement(702..872)
                     /locus_tag="LM302_RS28750"
                     /old_locus_tag="LM302_28740"
                     /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="hypothetical protein"
                     /protein_id="WP_004193911.1"
                     /translation="MHEPPVQSDYHARSGNYQLESNPERHDKSPVAVAIGNWVHGAEIV
                     ENAYRVLEVKA"
                     /name="hypothetical protein"
     gene            1511..1834
                     /locus_tag="LM302_RS28755"
                     /old_locus_tag="LM302_28745"
     CDS             1511..1834
                     /locus_tag="LM302_RS28755"
                     /old_locus_tag="LM302_28745"
                     /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_004193914.1"
                     /translation="MLTMWVTEDEHRRLLERCEGKQLAAWMRQTCLDEKPARAGKLPSI
                     SPALLRQLAGMGNNLNQIARQVNAGGGSGHDRVQIVAALMAIDAGLERLRHAVLEKGAD
                     DDR"
                     /name="MobC family plasmid mobilization relaxosome protein"
     gene            2043..>2477
                     /locus_tag="LM302_RS28760"
                     /old_locus_tag="LM302_28750"
                     /pseudo=""
     CDS             2043..>2477
                     /locus_tag="LM302_RS28760"
                     /old_locus_tag="LM302_28750"
                     /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            2512..2997
                     /locus_tag="LM302_RS28765"
                     /old_locus_tag="LM302_28755"
     CDS             2512..2997
                     /locus_tag="LM302_RS28765"
                     /old_locus_tag="LM302_28755"
                     /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_025367738.1"
                     /translation="MNSLLTLAKDLEQKSKAQQQTTGEMLKAAFSEHEKSVRAELSESE
                     KRISAAILDHDRKLSSAMSQRTKGMLRMVSQTWLTIVLVSALLIASSAGILWWQGQQIL
                     ENYTTIREQKSTQAMLSERNSGVQLSTCGEQRRRCVRVNPEAGQFGEDSSWMILAGK"
                     /name="MbeB family mobilization protein"
     gene            3001..3216
                     /locus_tag="LM302_RS28770"
                     /old_locus_tag="LM302_28760"
     CDS             3001..3216
                     /locus_tag="LM302_RS28770"
                     /old_locus_tag="LM302_28760"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000137421.1"
                     /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_024195375.1"
                     /translation="MTELEKQLLSALEQLQQDYSKRLDEWENAFAEWRTMSGLIQRENA
                     ALNERVTVLSRQVQSLSEQLRRLSKG"
                     /name="MbeD family mobilization/exclusion protein"
     ARG             162..493
                     /name="qacG"
                     /gene="qacG"
                     /gene_name="small multidrug resistance (SMR) antibiotic
                     efflux pump"
                     /tool="rgi"
                     /drug_class="disinfecting agents and antiseptics"
                     /identity="41.35"
                     /coverage="102.8"
     Typing          1224..1415
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.821"
                     /coverage="89.0"
                     /evalue="7.28e-73"
     Typing          complement(761..1241)
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.867"
                     /coverage="93.0"
                     /evalue="1.73e-132"
     Typing          1825..3218
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="93.118"
                     /coverage="93.0"
                     /evalue="0.0"
ORIGIN
        1 agaaactcac cggcagcagg agcgggcggt gcagcaccag aaagcgctgg agctggaacg
       61 atcgcagtgg cagcatcatg gtccttcgct atgataagcc gggttctatt aattagttgt
      121 tatgtaaaga tatttaaatt tttcaacatg aggtattttt atgaatacat atattttcct
      181 gggaggggct attgtggctg aagtcatagg caccaccttt atgaaatatt cagaaggatt
      241 tacacgcctg tggccgtctg taggaactgc aataagttat tgcgctgcct tttatctgct
      301 ttcccaaaca ttggaaaata tacctaccgg tattgcttac gcaatttggt ctggtgcggg
      361 aattgtacta ataagcctag ctggttggtt ggttagcggt caaaaacttg attggcccgc
      421 aattgcagga atgttcctta tttgcgttgg agttttggtt attaatattt tttcaaaatc
      481 ttctgcgcat taacttttta ccgaagcata ttggccaaag caaaaggatt tccttgagat
      541 cctttctttc tgcgcgtaat ctttttccct gtaaacaaaa aaaccaccgc taccaacggt
      601 ggttcgtttg ccggaattca gagctaccaa ctctttgttc cgatggtaac tggctttcac
      661 ggagcgcaga tacctaaact gtcctttcag tgtagccgca ctcaggcttt cacttcaaga
      721 actctgtagg cattctctac aatctctgct ccgtgaaccc agttaccaat ggctaccgcc
      781 actggcgatt tgtcgtgtct ttccgggttg gactcaagtt gatagttacc ggaacgggcg
      841 tggtagtcgg actgaacggg gggttcgtgc atacagtcca tcctggagcg aactgcctac
      901 ccggaaccga gtttcaggcg tggaatgaga aaccgcggcc ataacagcgg aatgacaccg
      961 gtaaaccgaa aggcaggaat gcgggggagc acgagggagc caccaggggg aaacgcctgg
     1021 tatctttaag ccgcatcggg tttcgccacc gctgatttga gcgtcatttt cgtgatactc
     1081 gtcagggggg cggagcctat ggaaaaacgg caactccgca tccttttctt ggcctttcct
     1141 gcttcgagcg gcatttgctt atcccgtaat ctgtgagctg gtaacgcccg ccgcagtctc
     1201 acggcaggag cgtagcgacc gagtgagcga ggaggcgtca tttcatcacc acctgcattt
     1261 tgcacttacg cccggcagcc gcatttttcc cctgtcacat gaagcacttt cataaattac
     1321 cactccgtca taacatgttt agccagtata cactccgcta gcgctacgtg actggttcag
     1381 ggctgcgccc cgaaacccgc taaaaccact gccgcgtctg cggcttgtcc aacaccgtgc
     1441 cgaccgggaa aagatttccc gtccgtcccg gcgttatcag gaggccggat tggcagacaa
     1501 acgcagcaaa atgctcacca tgtgggtgac tgaggacgag caccggcgtc tgctggagcg
     1561 ctgcgagggt aagcaactcg cggcctggat gcggcagacg tgcctggacg agaagcccgc
     1621 acgcgccggc aaacttccgt cgatctcgcc ggcgctgctt cgtcagcttg ccggcatggg
     1681 gaacaacctt aaccagattg cccgccaggt taacgccggt ggtggaagcg gacacgaccg
     1741 cgtgcagatt gtcgccgcgc tgatggccat cgatgccgga ctcgagcggt tgcggcatgc
     1801 cgtactggaa aagggtgctg atgatgatcg ttaagtttca tcctcggggg cgcggcggcg
     1861 gcggcgggcc ggtcgattat ctgctgggta aagatcgcca gcgcgacggc gccagcgttc
     1921 tgcaggggaa gccggatgaa gtccgggagc ttatcgacgc ctcgccctac gccaaaaagt
     1981 acacttccgg cgttctgtct tttgccgaac aggatttacc gcccggccag cgcgaaaagc
     2041 tgatggcgag tttcgagcgg gttctgatgc ccggactcga taaagaccag tacagcgtgc
     2101 tgtgggttga gcaccgggac aaggggcggc tggagctgaa cttcctgatc ccgaacacgg
     2161 agcttctgac cggcaagcgg ctacagccgt attacgaccg cgccgaccgt ccgcgcatcg
     2221 atgcctggca gaccatagtg aacggcaggc tggggctgca tgacccgaac gcgccggaga
     2281 accggcgggt gctggtctcg ccttccgcgc tgccggaagc gaagcaggaa gccgcccagg
     2341 cgattacgag cggcctgctt gcccttgcct catccgggga gctgaaaacg cgtcaggacg
     2401 tcactgaggc gctggaaagc gcaggttttg aggtggtgcg caccacaaaa agcagcatca
     2461 gcattgccga cccggacggg gggcgaaaca tccgactgaa gggagccatc tatgaacagt
     2521 cttttaacgc tggcgaagga cttagagcag aaatcgaaag cgcagcagca gactaccggc
     2581 gagatgctga aagccgcatt cagcgagcac gagaagtctg tcagagcgga actgagcgaa
     2641 agcgagaaga gaatcagcgc cgccatcctc gaccacgacc ggaagctgtc ctcagccatg
     2701 agccagcgca cgaaagggat gctgcgcatg gtcagccaga cgtggctgac catcgttctg
     2761 gtctccgcgc tgctgatagc gtcgagcgcg ggcattctgt ggtggcaggg gcagcagata
     2821 ctcgagaact atacgaccat ccgggagcag aagagcacgc aggccatgct gtcagagagg
     2881 aacagcggcg tacagctctc gacctgcggc gagcagagac gccgctgcgt gagggtgaac
     2941 ccggaagcgg gacagttcgg agaggactcg agctggatga tactggcggg gaaatagcac
     3001 atgacggagc tggaaaaaca gttgctgagc gcattagagc agctacagca ggactactcg
     3061 aaaaggctgg acgagtggga gaacgccttc gcggaatggc ggacgatgtc tggtcttatt
     3121 caacgggaga acgcggcgct gaacgagcgc gtcacggtct tgagcaggca ggtgcagagt
     3181 ttgagcgagc agctgcgccg gttgtcgaaa ggctgaacgc gat
//
