LOCUS       NZ_CP029444             3223 bp    DNA     circular CON 28-JAN-2024
DEFINITION  Serratia marcescens strain CAV1761 plasmid pCAV1761-3223, complete
            sequence.
ACCESSION   NZ_CP029444
VERSION     NZ_CP029444.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN09205456
            Assembly: GCF_003146705.1
KEYWORDS    RefSeq.
SOURCE      Serratia marcescens
  ORGANISM  Serratia marcescens
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Yersiniaceae; Serratia.
REFERENCE   1  (bases 1 to 3223)
  AUTHORS   Mathers,A.J., Vegesana,K., Stoesser,N., Crook,D., Vaughan,A.,
            Barry,K., Parikh,H., Sebra,R., Kotay,S., Walker,A.S. and
            Sheppard,A.E.
  TITLE     Klebsiella quasipneumonaiae provides a window into carbapenemase
            gene transfer, plasmid rearrangements and nosocomial acquisition
            from the hospital environment
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3223)
  AUTHORS   Mathers,A.J., Vegesana,K., Stoesser,N., Crook,D., Vaughan,A.,
            Barry,K., Parikh,H., Sebra,R., Kotay,S., Walker,A.S. and
            Sheppard,A.E.
  TITLE     Direct Submission
  JOURNAL   Submitted (16-MAY-2018) Nuffield Department of Medicine, University
            of Oxford, John Radcliffe Hospital, Oxford OX39DU, United Kingdom
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. MAY-2015
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 36x
            Sequencing Technology             :: PacBio
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/28/2024 10:29:17
            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)                     :: 5,741
            CDSs (total)                      :: 5,616
            Genes (coding)                    :: 5,494
            CDSs (with protein)               :: 5,494
            Genes (RNA)                       :: 125
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 88
            ncRNAs                            :: 15
            Pseudo Genes (total)              :: 123
            CDSs (without protein)            :: 122
            Pseudo Genes (ambiguous residues) :: 0 of 123
            Pseudo Genes (frameshifted)       :: 44 of 123
            Pseudo Genes (incomplete)         :: 83 of 123
            Pseudo Genes (internal stop)      :: 16 of 123
            Pseudo Genes (multiple problems)  :: 18 of 123
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP029444.1.
            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="Serratia marcescens"
                     /mol_type="genomic DNA"
                     /strain="CAV1761"
                     /isolation_source="Peri-rectal"
                     /host="Homo sapiens"
                     /db_xref="taxon:615"
                     /plasmid="pCAV1761-3223"
                     /geo_loc_name="USA:Virginia"
                     /lat_lon="38.14 N 78.45 W"
                     /collection_date="2014-03-01"
                     /collected_by="Clinical Microbiology University of Virginia
                     Health System"
     gene            complement(join(3052..3223,1..161))
                     /locus_tag="DKC05_RS00005"
                     /old_locus_tag="DKC05_00005"
     CDS             complement(join(3052..3223,1..161))
                     /locus_tag="DKC05_RS00005"
                     /old_locus_tag="DKC05_00005"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016234454.1"
                     /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(329..544)
                     /locus_tag="DKC05_RS00010"
     CDS             complement(329..544)
                     /locus_tag="DKC05_RS00010"
                     /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"
     gene            complement(548..1033)
                     /locus_tag="DKC05_RS00015"
     CDS             complement(548..1033)
                     /locus_tag="DKC05_RS00015"
                     /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            complement(<1068..1772)
                     /locus_tag="DKC05_RS29085"
                     /pseudo=""
     CDS             complement(<1068..1772)
                     /locus_tag="DKC05_RS29085"
                     /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(1711..2034)
                     /locus_tag="DKC05_RS00025"
                     /old_locus_tag="DKC05_00015"
     CDS             complement(1711..2034)
                     /locus_tag="DKC05_RS00025"
                     /old_locus_tag="DKC05_00015"
                     /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"
     Typing          complement(2131..2322)
                     /name="MOB_unknown"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="92.308"
                     /coverage="89.0"
                     /evalue="3.38e-71"
     Typing          2302..2785
                     /name="ColRNAI_rep_cluster_1987"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="84.756"
                     /coverage="93.0"
                     /evalue="1.73e-132"
     Typing          complement(232..1721)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="91.784"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 atattttcca atgtttggga aagcagataa aaggcagcgc aataacttat tgcagttcct
       61 acagacggcc acaggcgtgt aaatccttct gaatatttca taaaggtggt gcctatgact
      121 tcagccacaa tagcccctcc caggaaaata tatgtattca taaaaatacc tcatgttgaa
      181 aaatttaaat atctttacat aacaactaat taatagaacc cggcttatca tagcgaagga
      241 ccatgatgct gccactgcga tcgttccagc tccagcgctt tctggtgctg caccgcccgc
      301 tcctgctgcc ggtgagtttc tatcgcgttc agcctttcga caaccggcgc agctgctcgc
      361 tcaaactctg cacctgcctg ctcaagaccg tgacgcgctc gttcagcgcc gcgttctccc
      421 gttgaataag accagacatc gtccgccatt ccgcgaaggc gttctcccac tcgtccagcc
      481 ttttcgagta gtcctgctgt agctgctcta atgcgctcag caactgtttt tccagctccg
      541 tcatgtgcta tttccccgcc agtatcatcc agctcgagtc ctctccgaac tgtcccgctt
      601 ccgggttcac cctcacgcag cggcgtctct gctcgccgca ggtcgagagc tgtacgccgc
      661 tgttcctctc tgacagcatg gcctgcgtgc tcttctgctc ccggatggtc gtatagttct
      721 cgagtatctg ctgcccctgc caccacagaa tgcccgcgct cgacgctatc agcagcgcgg
      781 agaccagaac gatggtcagc cacgtctggc tgaccatgcg cagcatccct ttcgtgcgct
      841 ggctcatggc tgaggacagc ttccggtcgt ggtcgaggat ggcggcgctg attctcttct
      901 cgctttcgct cagttccgct ctgacagact tctcgtgctc gctgaatgcg gctttcagca
      961 tctcgccggt agtctgctgc tgcgctttcg atttctgctc taagtccttc gccagcgtta
     1021 aaagactgtt catagatggc tcccttcagt cggatgtttc gccccccgtc cgggtcggca
     1081 atgctgatgc tgctttttgt ggtgcgcacc acctcaaaac ctgcgctttc cagcgcctca
     1141 gtgacgtcct gacgcgtttt cagctccccg gatgaggcaa gggcaagcag gccgctcgta
     1201 atcgcctggg cggcttcctg cttcgcttcc ggcagcgcgg aaggcgagac cagcacccgc
     1261 cggttctccg gcgcgttcgg gtcatgcagc cccagcctgc cgttcactat ggtctgccag
     1321 gcatcgatgc gcggacggtc ggcgcggtcg taatacggct gtagccgctt gccggtcaga
     1381 agctccgtgt tcgggatcag gaagttcagc tccagccgcc ccttgtcccg gtgctcaacc
     1441 cacagcacgc tgtactggtc tttatcgagt ccgggcatca gaacccgctc gaaactcgcc
     1501 atcagctttt cgcgctggcc gggcggtaaa tcctgttcgg caaaagacag aacgccggaa
     1561 gtgtactttt tggcgtaggg cgaggcgtcg ataagctccc ggacttcatc cggcttcccc
     1621 tgcagaacgc tggcgccgtc gcgctggcga tctttaccca gcagataatc gaccggcccg
     1681 ccgccgccgc cgcgcccccg aggatgaaac ttaacgatca tcatcagcac ccttttccag
     1741 tacggcatgc cgcaaccgct cgagtccggc atcgatggcc atcagcgcgg cgacaatctg
     1801 cacgcggtcg tgtccgcttc caccaccggc gttaacctgg cgggcaatct ggttaaggtt
     1861 gttccccatg ccggcaagct gacgaagcag cgccggcgag atcgacggaa gtttgccggc
     1921 gcgtgcgggc ttctcgtcca ggcacgtctg ccgcatccag gccgcgagtt gcttaccctc
     1981 gcagcgctcc agcagacgcc ggtgctcgtc ctcagtcacc cacatggtga gcattttgct
     2041 gcgtttgtct gccaatccgg cctcctgata acgccgggac ggacgggaaa tcttttcccg
     2101 gtcggcacgg tgttggacaa gccgcaggcg cggcagtggt tttagcgggt ttcggggcgc
     2161 agccctgaac cagtcacgta gcgctagcgg agtgtatact ggctaaacat gttatgacgg
     2221 agtggcaatt tatgaaagtg cttcatgtga caggggaaaa atgcggctgc cgggcgtaag
     2281 tgcaaaatgc aggtggtgat gaaatgacgc ctcctcgctc actcggtcgc tacgctcctg
     2341 ccgtgagact gcggcgggcg ttaccagctc acagattacg ggataagcaa atgccgctcg
     2401 aagcaggaaa ggccaagaaa aggatgcgga gttgccgttt ttccataggc tccgcccccc
     2461 tgacgagtat cacgaaaatg acgctcaaat cagcggtggc gaaacccgat gcggcttaaa
     2521 gataccaggc gtttccccct ggtggctccc tcgtgctccc ccgcattcct gcctttcggt
     2581 ttaccggtgt cattccgctg ttatggccgc ggtttctcat tccacgcctg aaactcggtt
     2641 ccgggtaggc agttcgctcc aggatggact gtatgcacga accccccgtt cagtccgact
     2701 accacgcccg ttccggtaac tatcaacttg agtccaaccc ggaaagacac gacaaatcgc
     2761 cagtggcggt agccattggt aactgggttc acggagcaga gattgtagag aatgcctaca
     2821 gagttcttga agtgaaagcc tgagtgcggc tacactgaaa ggacagttta ggtatctgcg
     2881 ctccgtgaaa gccagttacc atcggaacaa agagttggta gctctgaatt ccggcaaacg
     2941 aaccaccgtt ggtagcggtg gtttttttgt ttacagggaa aaagattacg cgcagaaaga
     3001 aaggatctca aggaaatcct tttgctttgg ccaatatgct tcggtaaaaa gttaatgcgc
     3061 agaagatttt gaaaaaatat taataaccaa aactccaacg caaataagga acattcctgc
     3121 aattgcgggc caatcaagtt tttgaccgct aaccaaccaa ccagctaggc ttattagtac
     3181 aattcccgca ccagaccaaa ttgcgtaagc aataccggta ggt
//
