LOCUS       NZ_CP119543             3945 bp    DNA     circular CON 11-MAR-2024
DEFINITION  Providencia stuartii strain CAVP496 plasmid pCAVP496-3945, complete
            sequence.
ACCESSION   NZ_CP119543
VERSION     NZ_CP119543.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33687286
            Assembly: GCF_029277825.1
KEYWORDS    RefSeq.
SOURCE      Providencia stuartii
  ORGANISM  Providencia stuartii
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Morganellaceae; Providencia.
REFERENCE   1  (bases 1 to 3945)
  AUTHORS   Patel,A., Salomon,M., Barry,K., Parikh,H.I., Elliot,Z.S.,
            Fleece,M.E. and Mathers,A.J.
  TITLE     Management of PER-1 and NDM-producing Providencia stuartii
            bacteremia in a patient with a severe beta-lactam allergy: the
            increasing need for aztreonam-avibactam
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3945)
  AUTHORS   Patel,A., Salomon,M., Barry,K., Parikh,H.I., Elliot,Z.S.,
            Fleece,M.E. and Mathers,A.J.
  TITLE     Direct Submission
  JOURNAL   Submitted (08-MAR-2023) School of Medicine, University of Virginia,
            409 Lane Road, Charlottesville, VA 22908, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. v0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 100X
            Sequencing Technology :: Illumina MiSeq + Oxford Nanopore MinION
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_029277825.1-RS_2024_03_11
            Annotation Date                   :: 03/11/2024 12:51:51
            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)                     :: 4,307
            CDSs (total)                      :: 4,201
            Genes (coding)                    :: 4,118
            CDSs (with protein)               :: 4,118
            Genes (RNA)                       :: 106
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 77
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 83
            CDSs (without protein)            :: 83
            Pseudo Genes (ambiguous residues) :: 0 of 83
            Pseudo Genes (frameshifted)       :: 33 of 83
            Pseudo Genes (incomplete)         :: 59 of 83
            Pseudo Genes (internal stop)      :: 18 of 83
            Pseudo Genes (multiple problems)  :: 19 of 83
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP119543.1.
            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..3945
                     /organism="Providencia stuartii"
                     /mol_type="genomic DNA"
                     /strain="CAVP496"
                     /isolation_source="human"
                     /host="Homo sapiens"
                     /db_xref="taxon:588"
                     /plasmid="pCAVP496-3945"
                     /geo_loc_name="USA: Virginia"
                     /collected_by="University of Virginia Health System"
     gene            complement(join(3904..3945,1..345))
                     /locus_tag="P2E04_RS22115"
                     /old_locus_tag="P2E04_21480"
     CDS             complement(join(3904..3945,1..345))
                     /locus_tag="P2E04_RS22115"
                     /old_locus_tag="P2E04_21480"
                     /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_058671329.1"
                     /translation="MRISNVEWLKKRIGFIRKLGEKTTRQRQIIDLLDDEASLSETDRR
                     LLHVLATAEKNELQEQDAAQKKAVQARISGQKNRRERNHKLFLAAGLMIDAGLVDTKTG
                     ELNFDSEKLLTALKRVRCDLETSV"
                     /name="hypothetical protein"
     gene            513..1448
                     /locus_tag="P2E04_RS21485"
                     /old_locus_tag="P2E04_21485"
     CDS             513..1448
                     /locus_tag="P2E04_RS21485"
                     /old_locus_tag="P2E04_21485"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016235474.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobA/MobL family protein"
                     /protein_id="WP_072206570.1"
                     /translation="MATYHLSVKFGGKGKALAHANYITREDKFSQRKDLEHTEHGNMPE
                     WAKDDPAHFWQAADAFERANGSTYREIEIALPRELNEAQRLELVRDFVKQETGGQHTYS
                     FAIHNPQASIDGGEQPHAHIMMSQRVDDGIKRSPEQYFRRYNAKFPARGGARKDSGHNL
                     TPTEQKQALKALRERWERTHNAHMKRYGFEQGFIDSRSLKAQGIDRKPEQHLGFEAAGR
                     LDDSQRQDIKDSRTFSVVDVPEQAKHIDHSDRSWMNASGIEVNRKELVRSLTHDISQQY
                     GREMAARVTKQGNVEIERVKSLSRGFSISR"
                     /name="MobA/MobL family protein"
     gene            1451..1981
                     /locus_tag="P2E04_RS21490"
                     /old_locus_tag="P2E04_21490"
     CDS             1451..1981
                     /locus_tag="P2E04_RS21490"
                     /old_locus_tag="P2E04_21490"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000168766.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_012634455.1"
                     /translation="MASTEEKLLTLLLSAEHLKEAAKEQQKAVADSLAVARETLKGYRE
                     ISDSVAQQVRDEVRQEVQKMDVAGLIGERISADFQRLEKSVGNMKINADALDKEISIIR
                     SNIIAEYNTLRGYSWKWFAGVAVAFVVLIFATSWFVKTELQDNYNASAAVYQKVADLEK
                     LLTTEQKPEKKKN"
                     /name="hypothetical protein"
     gene            2932..3315
                     /locus_tag="P2E04_RS22120"
                     /old_locus_tag="P2E04_21495"
     CDS             2932..3315
                     /locus_tag="P2E04_RS22120"
                     /old_locus_tag="P2E04_21495"
                     /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_113421955.1"
                     /translation="MFFYRFITLIFGAVYIATTLTLGESALSSSLYAIGIAKTPSSASG
                     ILTLLLMLWVLVVSVMMPKSWKVFAGIYLCLGLSGFLMPKSMHYGAGVYPLINSLTLLS
                     YLAFTLAIKLRDKHISKINQKTA"
                     /name="hypothetical protein"
     Typing          2714..2869
                     /name="Col3M"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.089"
                     /coverage="100.0"
                     /evalue="2.29e-71"
     Typing          514..1445
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.678"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ggtcagtaat ttttcagagt caaaattcaa ctcacccgtt tttgtatcaa ccagtcccgc
       61 gtcaatcatc agtccggcag ccaagaacag tttgtgatta cgttccctgc ggtttttctg
      121 acctgaaatc cgtgcctgaa ccgccttttt ctgcgcggca tcctgttcct gcaactcgtt
      181 tttttcagcg gttgccagaa cgtggagcag tcgcctgtca gtctcactga gcgaagcctc
      241 atcatccagc aggtcgataa tctgccgttg ccgtgttgtt ttctccccca gttttctgat
      301 gaagcctatg cgctttttaa gccattcgac gttactgatc cgcatcgttt aacttcccca
      361 tcccgatatt tccgatggtg aaagtatata acttgcggtt agaagtcgca tgacttatct
      421 ttactcataa ttcttcaaat tagagtaaag cgcacttata tgtttctccc tgcgggcaga
      481 aacacgtgcg taaaaccaag ggcaaaaaca tcatggcaac ctatcatctc agcgtgaaat
      541 ttggcggcaa gggtaaagcc cttgctcatg ccaattacat cacgcgggaa gataagttca
      601 gtcagcgaaa agatctcgaa cacaccgagc acggcaatat gccggaatgg gcgaaagatg
      661 accccgccca tttctggcag gctgcggatg cgttcgaacg tgccaacggt tcaacgtacc
      721 gggaaatcga gatagcacta ccccgtgaac tgaacgaagc gcagcggctg gagcttgtca
      781 gggattttgt gaagcaggaa acgggcggtc aacatacgta ttcgtttgcg attcacaatc
      841 cgcaagccag cattgacggc ggcgaacagc cgcacgccca tatcatgatg agccagcgtg
      901 ttgatgacgg tattaagcgc agcccagagc agtatttcag gcgctataac gccaaatttc
      961 cggcgcgtgg cggcgcgcgc aaggactcag ggcataattt aacccctaca gaacaaaaac
     1021 aggcactgaa agccctgcgg gagcgctggg agcgtacgca caacgcgcat atgaaacgat
     1081 atggctttga gcagggtttt attgatagcc ggtcactgaa agcacagggt atagaccgga
     1141 aaccggaaca gcatctcggt tttgaagcag ccggacgact ggacgacagc cagaggcagg
     1201 atattaaaga cagccggacg ttttcagtcg tggatgtgcc tgaacaggcg aagcatatcg
     1261 accacagcga ccgtagctgg atgaatgcca gcggtatcga ggtaaaccgg aaggaactgg
     1321 tcagatctct gacgcatgat atctcgcagc agtacgggcg ggagatggct gcacgggtca
     1381 caaaacaggg aaatgttgaa atagagcgcg tgaaatccct gtcacgcgga ttttccataa
     1441 gcaggtaact atggcgagca ccgaagaaaa acttctcaca ctcctgctgt cggcggagca
     1501 tctgaaagag gccgcaaaag agcagcagaa agccgtggcg gattcgctgg cggtggcaag
     1561 ggaaaccctg aaaggctacc gggaaatatc agacagtgtg gcacagcagg tacgggatga
     1621 agtccggcag gaagtgcaga aaatggatgt tgcggggctg attggcgagc gtatcagcgc
     1681 tgattttcag cgtctggaaa aatccgtcgg gaacatgaaa atcaatgcgg acgcgctgga
     1741 caaggaaatt tccattatcc gcagcaatat catcgcggag tacaacacgc tgcggggtta
     1801 cagctggaag tggtttgcag gggttgcggt tgcctttgtc gtactgatat ttgccacaag
     1861 ctggtttgtg aaaacggaac tacaggacaa ttacaacgcg tctgctgccg tctatcagaa
     1921 agtggcagac cttgaaaagc tgctgacaac ggaacagaaa ccggaaaaga aaaagaactg
     1981 acgcgctgcg cttgtccaac gcctcacgtt cgcacaataa attgcgcacc cgttcaccgt
     2041 tttcagccgg gtttggggcg tcttttgaga cttccggcct gaattcaggc cggaagttct
     2101 cgccagtcag tcaggtgcat ggttatgcat ggggctgaaa atcacggtat gcgattctga
     2161 gcggttttcg gtgagaagac gggggttttt atggctcagg acgtaaaacc gccctgagcg
     2221 cgtttcagcg gtgcgcgtaa tgacgcgtta tggtaaatcg gtgccacagg cgtaagtatc
     2281 tgctaaggat ctttttgttg attctttttt aagagcataa tgagattata taaattgatt
     2341 ttggggtccg cttggaaaag ggaaaataac ctacgctaag actacttttt aaccaatcgg
     2401 ctattggata tcactcggtt cgcggggcta cagcgtttct gtgtccgaaa ccgaacgatt
     2461 acgtacagca tgtagacaac atgtccgaaa gtaagcaaaa ccattaacgg acagccggat
     2521 catttcgtac atcccttacg gtcaggggtt cgcgctcaat ggaacgaaat cacccgttag
     2581 cttaaaacgc ttaacgtagg ataatttcct ttttccaagc ggacccgtac tcggttggtc
     2641 aaatcgcttc ttgccacaaa acaagtttgt gtctttcagc gatttcgcat cgttttactt
     2701 gtcagtttga atgatgttaa aaacgcactc agaagctcgc aaaaccgttc taaactttca
     2761 gcgtagattt gggtgtttta tagggtgata gtgtcttaaa atcgttttga ggggctttag
     2821 tggggatgaa cgggcggttt tcgctaacta actcgcccgt ttaacataaa agggattaga
     2881 agaacctatt ttcatgtaaa atctacaatt atttaatgtg gacgggctat tatgtttttc
     2941 tatcgattta tcactttaat ttttggggca gtgtatattg ctacaactct aacattggga
     3001 gagtcggcgt tatcctcttc gctttatgca atagggattg ctaaaacccc tagctccgct
     3061 tctggtattt tgactctttt gttgatgttg tgggttttag ttgtttcggt catgatgcct
     3121 aaatcttgga aagtttttgc tggcatttat ctatgcttgg gtttgtctgg gttccttatg
     3181 ccgaaaagca tgcattatgg tgccggtgtt tacccattga taaactcttt aacacttctt
     3241 agttatctgg cttttaccct tgcaataaag ctaagagaca aacacatctc caaaataaat
     3301 caaaaaaccg cctaatgccc caatgtggta ctaatcaaaa cggagcgaag cgacaacgac
     3361 tttttgtctt tgcttttctc catgattagt tattgggtca tggcttctca gctggcgtat
     3421 ttagctaagt ctgattaggt tgggcttctt tcgacggtgc aatccaagaa atccctagtc
     3481 cgttgattgg tgctcttatc aggtacgcac tgtaatcttt cgataccgca gcgtgattcg
     3541 gaggcagagc cggaatttcg ttttccggta cgttttacta ccacaatttg cctgtttatc
     3601 ctttcggaga ccgggctaag tccgagtcaa tcaagtggtg catagtgtgt taatgtcgtt
     3661 gaatggtttt aaggaagtcg tgacaagcga gcttcccatt gctaagattg gagtgcgaat
     3721 tcgaaatcgt agcaatgtat gcaccgattt agagtatcag agccccatga cgctgtcacg
     3781 gggctttgtt acatctggaa cctgataaac cccacaaatt caatctgcaa cgctcgccgc
     3841 aagatgcaaa ctggttttgc atcgaggaag cgtcatatca ctgaatcctt gcagaatgca
     3901 cggtcacacc gatgtttcca gatcacagcg tacccgtttc agcgc
//
