LOCUS       NZ_CP119549             3945 bp    DNA     circular CON 11-APR-2024
DEFINITION  Providencia stuartii strain CAVP490 plasmid pCAVP490-3945, complete
            sequence.
ACCESSION   NZ_CP119549
VERSION     NZ_CP119549.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33687285
            Assembly: GCF_029277985.1
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  JOURNAL   Unpublished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_029277985.1-RS_2024_03_11
            Annotation Date                   :: 03/11/2024 12:53:50
            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)                     :: 4,279
            CDSs (total)                      :: 4,172
            Genes (coding)                    :: 4,092
            CDSs (with protein)               :: 4,092
            Genes (RNA)                       :: 107
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 78
            ncRNAs                            :: 7
            Pseudo Genes (total)              :: 80
            CDSs (without protein)            :: 80
            Pseudo Genes (ambiguous residues) :: 0 of 80
            Pseudo Genes (frameshifted)       :: 33 of 80
            Pseudo Genes (incomplete)         :: 57 of 80
            Pseudo Genes (internal stop)      :: 17 of 80
            Pseudo Genes (multiple problems)  :: 19 of 80
            CRISPR Arrays                     :: 3
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP119549.1.
            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="CAVP490"
                     /isolation_source="human"
                     /host="Homo sapiens"
                     /db_xref="taxon:588"
                     /plasmid="pCAVP490-3945"
                     /geo_loc_name="USA: Virginia"
                     /collected_by="University of Virginia Health System"
     gene            join(3805..3945,1..390)
                     /locus_tag="P2E05_RS21340"
                     /old_locus_tag="P2E05_21340"
     CDS             join(3805..3945,1..390)
                     /locus_tag="P2E05_RS21340"
                     /old_locus_tag="P2E05_21340"
                     /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            1341..1724
                     /locus_tag="P2E05_RS21345"
                     /old_locus_tag="P2E05_21345"
     CDS             1341..1724
                     /locus_tag="P2E05_RS21345"
                     /old_locus_tag="P2E05_21345"
                     /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"
     gene            complement(2313..2699)
                     /locus_tag="P2E05_RS21885"
                     /old_locus_tag="P2E05_21350"
     CDS             complement(2313..2699)
                     /locus_tag="P2E05_RS21885"
                     /old_locus_tag="P2E05_21350"
                     /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            2867..3802
                     /locus_tag="P2E05_RS21355"
                     /old_locus_tag="P2E05_21355"
     CDS             2867..3802
                     /locus_tag="P2E05_RS21355"
                     /old_locus_tag="P2E05_21355"
                     /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"
     Typing          1123..1278
                     /name="Col3M"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="98.089"
                     /coverage="100.0"
                     /evalue="2.29e-71"
     Typing          2868..3799
                     /name="MOBQ"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="99.678"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gacagtgtgg cacagcaggt acgggatgaa gtccggcagg aagtgcagaa aatggatgtt
       61 gcggggctga ttggcgagcg tatcagcgct gattttcagc gtctggaaaa atccgtcggg
      121 aacatgaaaa tcaatgcgga cgcgctggac aaggaaattt ccattatccg cagcaatatc
      181 atcgcggagt acaacacgct gcggggttac agctggaagt ggtttgcagg ggttgcggtt
      241 gcctttgtcg tactgatatt tgccacaagc tggtttgtga aaacggaact acaggacaat
      301 tacaacgcgt ctgctgccgt ctatcagaaa gtggcagacc ttgaaaagct gctgacaacg
      361 gaacagaaac cggaaaagaa aaagaactga cgcgctgcgc ttgtccaacg cctcacgttc
      421 gcacaataaa ttgcgcaccc gttcaccgtt ttcagccggg tttggggcgt cttttgagac
      481 ttccggcctg aattcaggcc ggaagttctc gccagtcagt caggtgcatg gttatgcatg
      541 gggctgaaaa tcacggtatg cgattctgag cggttttcgg tgagaagacg ggggttttta
      601 tggctcagga cgtaaaaccg ccctgagcgc gtttcagcgg tgcgcgtaat gacgcgttat
      661 ggtaaatcgg tgccacaggc gtaagtatct gctaaggatc tttttgttga ttctttttta
      721 agagcataat gagattatat aaattgattt tggggtccgc ttggaaaagg gaaaataacc
      781 tacgctaaga ctacttttta accaatcggc tattggatat cactcggttc gcggggctac
      841 agcgtttctg tgtccgaaac cgaacgatta cgtacagcat gtagacaaca tgtccgaaag
      901 taagcaaaac cattaacgga cagccggatc atttcgtaca tcccttacgg tcaggggttc
      961 gcgctcaatg gaacgaaatc acccgttagc ttaaaacgct taacgtagga taatttcctt
     1021 tttccaagcg gacccgtact cggttggtca aatcgcttct tgccacaaaa caagtttgtg
     1081 tctttcagcg atttcgcatc gttttacttg tcagtttgaa tgatgttaaa aacgcactca
     1141 gaagctcgca aaaccgttct aaactttcag cgtagatttg ggtgttttat agggtgatag
     1201 tgtcttaaaa tcgttttgag gggctttagt ggggatgaac gggcggtttt cgctaactaa
     1261 ctcgcccgtt taacataaaa gggattagaa gaacctattt tcatgtaaaa tctacaatta
     1321 tttaatgtgg acgggctatt atgtttttct atcgatttat cactttaatt tttggggcag
     1381 tgtatattgc tacaactcta acattgggag agtcggcgtt atcctcttcg ctttatgcaa
     1441 tagggattgc taaaacccct agctccgctt ctggtatttt gactcttttg ttgatgttgt
     1501 gggttttagt tgtttcggtc atgatgccta aatcttggaa agtttttgct ggcatttatc
     1561 tatgcttggg tttgtctggg ttccttatgc cgaaaagcat gcattatggt gccggtgttt
     1621 acccattgat aaactcttta acacttctta gttatctggc ttttaccctt gcaataaagc
     1681 taagagacaa acacatctcc aaaataaatc aaaaaaccgc ctaatgcccc aatgtggtac
     1741 taatcaaaac ggagcgaagc gacaacgact ttttgtcttt gcttttctcc atgattagtt
     1801 attgggtcat ggcttctcag ctggcgtatt tagctaagtc tgattaggtt gggcttcttt
     1861 cgacggtgca atccaagaaa tccctagtcc gttgattggt gctcttatca ggtacgcact
     1921 gtaatctttc gataccgcag cgtgattcgg aggcagagcc ggaatttcgt tttccggtac
     1981 gttttactac cacaatttgc ctgtttatcc tttcggagac cgggctaagt ccgagtcaat
     2041 caagtggtgc atagtgtgtt aatgtcgttg aatggtttta aggaagtcgt gacaagcgag
     2101 cttcccattg ctaagattgg agtgcgaatt cgaaatcgta gcaatgtatg caccgattta
     2161 gagtatcaga gccccatgac gctgtcacgg ggctttgtta catctggaac ctgataaacc
     2221 ccacaaattc aatctgcaac gctcgccgca agatgcaaac tggttttgca tcgaggaagc
     2281 gtcatatcac tgaatccttg cagaatgcac ggtcacaccg atgtttccag atcacagcgt
     2341 acccgtttca gcgcggtcag taatttttca gagtcaaaat tcaactcacc cgtttttgta
     2401 tcaaccagtc ccgcgtcaat catcagtccg gcagccaaga acagtttgtg attacgttcc
     2461 ctgcggtttt tctgacctga aatccgtgcc tgaaccgcct ttttctgcgc ggcatcctgt
     2521 tcctgcaact cgtttttttc agcggttgcc agaacgtgga gcagtcgcct gtcagtctca
     2581 ctgagcgaag cctcatcatc cagcaggtcg ataatctgcc gttgccgtgt tgttttctcc
     2641 cccagttttc tgatgaagcc tatgcgcttt ttaagccatt cgacgttact gatccgcatc
     2701 gtttaacttc cccatcccga tatttccgat ggtgaaagta tataacttgc ggttagaagt
     2761 cgcatgactt atctttactc ataattcttc aaattagagt aaagcgcact tatatgtttc
     2821 tccctgcggg cagaaacacg tgcgtaaaac caagggcaaa aacatcatgg caacctatca
     2881 tctcagcgtg aaatttggcg gcaagggtaa agcccttgct catgccaatt acatcacgcg
     2941 ggaagataag ttcagtcagc gaaaagatct cgaacacacc gagcacggca atatgccgga
     3001 atgggcgaaa gatgaccccg cccatttctg gcaggctgcg gatgcgttcg aacgtgccaa
     3061 cggttcaacg taccgggaaa tcgagatagc actaccccgt gaactgaacg aagcgcagcg
     3121 gctggagctt gtcagggatt ttgtgaagca ggaaacgggc ggtcaacata cgtattcgtt
     3181 tgcgattcac aatccgcaag ccagcattga cggcggcgaa cagccgcacg cccatatcat
     3241 gatgagccag cgtgttgatg acggtattaa gcgcagccca gagcagtatt tcaggcgcta
     3301 taacgccaaa tttccggcgc gtggcggcgc gcgcaaggac tcagggcata atttaacccc
     3361 tacagaacaa aaacaggcac tgaaagccct gcgggagcgc tgggagcgta cgcacaacgc
     3421 gcatatgaaa cgatatggct ttgagcaggg ttttattgat agccggtcac tgaaagcaca
     3481 gggtatagac cggaaaccgg aacagcatct cggttttgaa gcagccggac gactggacga
     3541 cagccagagg caggatatta aagacagccg gacgttttca gtcgtggatg tgcctgaaca
     3601 ggcgaagcat atcgaccaca gcgaccgtag ctggatgaat gccagcggta tcgaggtaaa
     3661 ccggaaggaa ctggtcagat ctctgacgca tgatatctcg cagcagtacg ggcgggagat
     3721 ggctgcacgg gtcacaaaac agggaaatgt tgaaatagag cgcgtgaaat ccctgtcacg
     3781 cggattttcc ataagcaggt aactatggcg agcaccgaag aaaaacttct cacactcctg
     3841 ctgtcggcgg agcatctgaa agaggccgca aaagagcagc agaaagccgt ggcggattcg
     3901 ctggcggtgg caagggaaac cctgaaaggc taccgggaaa tatca
//
