LOCUS       NZ_CP137922             6046 bp    DNA     circular CON 17-NOV-2023
DEFINITION  Proteus vulgaris strain 2023JQ-00005 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP137922
VERSION     NZ_CP137922.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN35130710
            Assembly: GCF_033708015.1
KEYWORDS    RefSeq.
SOURCE      Proteus vulgaris
  ORGANISM  Proteus vulgaris
            Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales;
            Morganellaceae; Proteus.
REFERENCE   1  (bases 1 to 6046)
  AUTHORS   Hergert,J., Casey,R., Wagner,J., Young,E.L. and Oakeson,K.F.
  TITLE     Pathogen: clinical or host-associated sample
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 6046)
  AUTHORS   Hergert,J., Casey,R., Wagner,J., Young,E.L. and Oakeson,K.F.
  TITLE     Direct Submission
  JOURNAL   Submitted (02-NOV-2023) Utah Public Health Laboratory, Utah Public
            Health Laboratory Infectious Disease submission group, 4431 S 2700
            W, Salt Lake City, UT 84129, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: Unicycler v. 0.5.0
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 102.0x
            Sequencing Technology :: Oxford Nanopore GridION; Illumina MiSeq
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 11/17/2023 04:07:29
            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)                     :: 4,136
            CDSs (total)                      :: 4,025
            Genes (coding)                    :: 3,969
            CDSs (with protein)               :: 3,969
            Genes (RNA)                       :: 111
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 85
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 56
            CDSs (without protein)            :: 56
            Pseudo Genes (ambiguous residues) :: 0 of 56
            Pseudo Genes (frameshifted)       :: 15 of 56
            Pseudo Genes (incomplete)         :: 44 of 56
            Pseudo Genes (internal stop)      :: 12 of 56
            Pseudo Genes (multiple problems)  :: 12 of 56
            CRISPR Arrays                     :: 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP137922.1.
            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..6046
                     /organism="Proteus vulgaris"
                     /mol_type="genomic DNA"
                     /strain="2023JQ-00005"
                     /isolation_source="wound"
                     /host="Homo sapiens"
                     /db_xref="taxon:585"
                     /plasmid="unnamed2"
                     /geo_loc_name="USA"
                     /collection_date="2022"
     gene            complement(180..623)
                     /locus_tag="SB028_RS20655"
                     /old_locus_tag="SB028_20655"
     CDS             complement(180..623)
                     /locus_tag="SB028_RS20655"
                     /old_locus_tag="SB028_20655"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_008924756.1"
                     /GO_function="GO:0016846 - carbon-sulfur lyase activity
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="GFA family protein"
                     /protein_id="WP_074176222.1"
                     /translation="MISGSCLCGSVKFTIKNQPEKFYRCHCSLCRRQSGVGHNLATIVK
                     IEDFDWQTSSSFISSWKKESGYRNDFCNSCGSTVPNALRDQPFVWLPLGLLDDDISADC
                     CGDFCTDDSMMWDCVRSANSNKSAVNSLFDLLLMLNVVQANFE"
                     /name="GFA family protein"
     gene            complement(1136..1795)
                     /locus_tag="SB028_RS20660"
                     /old_locus_tag="SB028_20660"
     CDS             complement(1136..1795)
                     /locus_tag="SB028_RS20660"
                     /old_locus_tag="SB028_20660"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_016704531.1"
                     /GO_function="GO:0016787 - hydrolase activity [Evidence
                     IEA]"
                     /GO_process="GO:0008152 - metabolic process [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="HAD-IA family hydrolase"
                     /protein_id="WP_044111716.1"
                     /translation="MVFSQTYPTRVYKLVIFDFDGTLADSFPFFVSTINHLADMHSFKK
                     IYLDEVESFREISSREIMKNLGIPVWKLPAITQSFIKLMKVNSSKIPLFDHTDEMLAHL
                     NEHGITVGLVSSNGYENVTSVLGSSCRYFSYFECGASFFGKASRLKQLLKKADFKPSET
                     IYIGDQITDYEAARTVGIAFGAVLWGYSSEKLLKKLSPDEIFENVSAIKRITVSKK"
                     /name="HAD-IA family hydrolase"
     gene            complement(1905..2933)
                     /locus_tag="SB028_RS20665"
                     /old_locus_tag="SB028_20665"
     CDS             complement(1905..2933)
                     /locus_tag="SB028_RS20665"
                     /old_locus_tag="SB028_20665"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000925253.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006355 - regulation of DNA-templated
                     transcription [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MerR family transcriptional regulator"
                     /protein_id="WP_044111719.1"
                     /translation="MLLQVGELAKRTGLTIRTLHHYDDIGLLQPSARSDAGYRLYSRQD
                     ITRLYQIQALRGLGMTLAEIGAVLNSPNLALAPLIDRQIQAIDQMIIKQTQLRYRLSSL
                     KNQLMNGEELELDNWLKTLELMSMYEQYFTKEELADLTFLQADSKQQKEWEALVVEANA
                     LFKAGESSSSETAQNLASRWMLTLEQNTAANPEWLVKLNSMHSAESAFQEKLGVHPEVV
                     EFLLEAFAESKLNVFARYLSEQEFAFMKQNYAREMKNWPQLLIGLEKAIHAGIEPDSEQ
                     AKCLAQQWLSMLQGYAGKNPATHAKIRNAMQNEPSLAEGTWLKPTTLQFLEKAVSALMR
                     CA"
                     /name="MerR family transcriptional regulator"
     gene            complement(3267..3695)
                     /locus_tag="SB028_RS20670"
                     /old_locus_tag="SB028_20670"
     CDS             complement(3267..3695)
                     /locus_tag="SB028_RS20670"
                     /old_locus_tag="SB028_20670"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_006816427.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_044111721.1"
                     /translation="MALVSISEAARLTGKARSTLHKYIKQGKLSTTTDQNTGNKSIETS
                     ELIRVFGKISNSPTTDCDGVTNVSKLQQETPNTTQSLQIKLQLLEQENAHLKAEKELLS
                     KNLDDIRQAMLLIESKLPTTPEQARPVPAKKSWQFWKK"
                     /name="hypothetical protein"
     gene            complement(3698..4396)
                     /locus_tag="SB028_RS20675"
                     /old_locus_tag="SB028_20675"
     CDS             complement(3698..4396)
                     /locus_tag="SB028_RS20675"
                     /old_locus_tag="SB028_20675"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001281399.1"
                     /GO_function="GO:0003887 - DNA-directed DNA polymerase
                     activity [Evidence IEA]"
                     /GO_process="GO:0006270 - DNA replication initiation
                     [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="replication initiation protein"
                     /protein_id="WP_044111722.1"
                     /translation="MSELIAYKSNALIEASYKLTLQEQRLLLMCIGKLNPLDKTPQKTF
                     KITSGDFYLAFPDMGKSNAERHLKEAIDKLAERWIYIQNNNERRRIRWIQEEAEYFEGE
                     GKIEIVFADSIMPYLTQLQGQFTKIVIKNVSTLKSVYSIRLYELLMQFKVIGDRLISIN
                     DFRSMLGLDEKKYATFKSLNQWVIKPAIKELNQKSNLSVTVDTVKKGRSVFALHFHFKE
                     DQQIKMMLED"
                     /name="replication initiation protein"
     gene            complement(5546..5803)
                     /locus_tag="SB028_RS20680"
                     /old_locus_tag="SB028_20680"
     CDS             complement(5546..5803)
                     /locus_tag="SB028_RS20680"
                     /old_locus_tag="SB028_20680"
                     /inference="COORDINATES: protein motif:HMM:TIGR02607.1"
                     /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_044111715.1"
                     /translation="MRMYKPPHVGELITETLNELNLSIDILAEKLEMNVFETEQLVNGN
                     LIITLPIAKRLSMTLGSSSSFWLNIQKNYYKRSSIKNEFF"
                     /name="HigA family addiction module antitoxin"
     Typing          complement(3699..4396)
                     /name="rep_cluster_1791"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="97.997"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tttcaggata gatttggatg ttatggggtg tgtttggtgc ttaaaatcag gttgaggcgt
       61 tttgatggtg ttaaacgggc tgttttgagg tgtaaactcg cccgtttaac ataatgggcc
      121 agtcacgcat caaagcttca agaactagta aaaacgcgca tctaaggcgt actcacttct
      181 tactcaaaat tagcctgtac aacattcaac atgagcaata aatcgaacag gctatttacc
      241 gcactcttat tactattcgc tgagcgtaca caatcccaca tcatcgaatc atcggtgcaa
      301 aaatcaccac agcagtcagc ggaaatatca tcatcaagca atccaagtgg tagccataca
      361 aagggctgat ctctcaaagc gtttggaact gtcgaaccac atgaattaca aaagtcattt
      421 cgatatccac tttccttttt ccacgaggaa atgaaactac tcgaagtttg ccaatcaaaa
      481 tcttcaattt tcactatggt ggctaaatta tgaccaactc cagattgcct tcggcatagt
      541 gaacagtgac atctataaaa tttctcgggc tgatttttta tcgtaaattt cactgagcca
      601 cacaaacatg aaccactaat caaaggaatc accataaaaa taaaaaagtg tatttactac
      661 tataatacca tctgttacgc agttcctgaa aggtgtcaat gatgctgata taggggtcag
      721 tttggatata gaaaattatt gtacggtaag cctgtttttt gaacaggttt cacctatctc
      781 aatgaggtgt acttctgcat caatccctta cgggttgatt tggttaaata gtgcgctaaa
      841 cgtacaagat tttccgatct ccaaactgac ccccaatagt gtaggcttaa attccattgc
      901 ttttttctta gttggatgaa tcctaatctt tagtttttca cctatgttta actttccttc
      961 aactttacgg ataaagggat tccaactctc atacgattta aagtcagtca gtacctgcca
     1021 aacttattcc ggtgtcgcat taatatcaat atgtgtagtt atctttaaag aaagcataat
     1081 ttacctctgg tatctagaat ggcgattctc tgcttataag cataatttag tagggttatt
     1141 ttttgctgac agtaatcctc tttatggcag acacattttc aaatatctca tcaggtgaca
     1201 gtttctttaa aagtttttct gaactgtaac cccataaaac tgcaccgaaa gcaattccta
     1261 ccgttctagc tgcttcataa tcggtaatct gatcaccaat atagatagtt tctgatggtt
     1321 taaagtctgc tttttttaaa agctgcttta acctagatgc ttttccaaaa aaagatgcac
     1381 cgcattcaaa gtaactaaag tatcgacagc ttgaaccaag aacactggtc acattttcgt
     1441 atccatttga agaaactaat cctactgtaa ttccatgttc attaaggtgt gcaagcattt
     1501 catctgtatg atcaaataga ggaatctttg aagaatttac cttcataagt tttataaaac
     1561 tctgagtaat cgcaggtagt ttccatactg gtatcccaag atttttcatt atctctcggg
     1621 aagatatttc cctaaaagat tcaacctcat ctaaataaat cttcttgaaa gaatgcatgt
     1681 cagctagatg atttatagtt gaaacaaaga aaggaaagga atctgctaag gttccatcaa
     1741 aatcgaaaat aaccaactta tatactctag ttggataagt ttgtgagaat accatttact
     1801 ctacttactc catataaaat attttaaaat cataaattta atgaccaccc caaattatgg
     1861 ggtagccata ctactttgat tatttgaata gaggtaagca tgtactaagc acaacgcatt
     1921 aaagctgata ctgctttttc taaaaattgc aaagtggtag gtttgagcca ggttccctcg
     1981 gcaagacttg gttcattttg catggcattg cgaatcttcg catgtgtcgc cggatttttg
     2041 cctgcgtaac cttgcaacat ggagagccat tgctgtgcta aacattttgc ttgttcactg
     2101 tcaggttcaa tcccagcatg aatggccttc tccaatccga tcaataactg gggccaattt
     2161 ttcatctcac gtgcataatt ttgcttcata aaagcaaatt cctgctcgga taaataacgt
     2221 gcaaaaacgt tcagcttact ctcggcaaat gcttcaagta gaaactcaac cacttccgga
     2281 tgcacaccca atttttcctg aaatgccgat tcagctgaat gcatgctatt caatttaacc
     2341 aaccattcag gattagcagc cgtattctgt tcgagagtca gcatccagcg tgaagccagg
     2401 ttttgggcag tttcactact agaagattct ccggccttaa agagtgcatt cgcttcgacg
     2461 acaagcgctt cccattcttt ttgttgttta ctgtctgcct gtaaaaaagt cagatctgca
     2521 agttcctctt ttgtaaaata ttgttcgtac atagacataa gctccagtgt ttttagccaa
     2581 ttgtccagtt ccagctcttc accattcatc agttgatttt tgagactgct caaacgatag
     2641 cgcagttgag tctgcttaat gatcatctga tcgattgcct gaatctgccg atcaattaat
     2701 ggggcgagtg ccaagtttgg actattaaga accgcgccaa tttctgccaa tgtcattcca
     2761 agccctcgca atgcctgaat ttggtataag cgagtaatat cttgacggct gtaaagtcgg
     2821 taaccggcgt cggagcgggc cgaaggctga agtaaaccga tatcatcata gtgatgaagg
     2881 gtgcgaatag ttaaccctgt ccgcttagcc agttcaccga cttgtaataa catcttttga
     2941 ctcctttatt ccttaggcgt gtcttatgct agaggctaac gttacgttag ggtcaagtat
     3001 ctaagctata aaaaatattt atggcaaata atttacattt ctaatgtttt atttatttag
     3061 gtagtagaat tttttatatt ccaaaaattt cgactccatt taacataatg atgcttaagc
     3121 gtaacgccat ttaggcactc aacctaaaat tcccctcaaa tgctcaaaac tccctatctt
     3181 ctccccgtaa aaagccccat ttttgtgtta gttatttgtt atcaaaagga cagtttgggt
     3241 ttcgcggtga aaatggtatc aaacggctat tttttccaga attgccatga ttttttggcg
     3301 ggcacaggtc tagcttgttc gggtgttgtc ggcagcttgg attcgattaa tagcatagct
     3361 tgacgtatat catctaaatt ttttgaaagt aactcttttt cagcttttaa gtgtgcattt
     3421 tcttgttcaa gaagttgaag tttaatctgt agtgactgtg tagtgttggg tgtttcttgc
     3481 tgtagttttg atacattagt gacaccgtca cagtctgtag ttggagaatt gcttatttta
     3541 ccaaatactc taattaactc agatgtttca atgcttttat ttcctgtatt ttgatctgta
     3601 gtcgtagaca gtttcccttg ttttatgtac ttgtgtagtg tgcttcttgc ttttcctgtc
     3661 agccttgccg cttcactgat tgataccaaa gccataatca atcctctaac atcattttta
     3721 tttgttgatc ttctttgaag tgaaagtgta gcgcaaaaac actcctgcct ttttttactg
     3781 tatcaactgt tacagataga ttgctttttt ggtttaactc ttttattgct ggttttatta
     3841 cccattgatt cagtgatttg aaggtggcgt attttttttc gtccaaacct agcatcgagc
     3901 gaaaatcatt aatgctgatc aatcgatcgc caatcacttt aaattgcatt aataactcat
     3961 ataaacgaat gctatagaca ctttttagtg ttgatacatt tttgatcaca attttagtaa
     4021 attgaccttg aagctgagtt aagtagggca ttatggaatc agcaaaaaca atttctattt
     4081 ttccctcacc ctcaaaatat tctgcttctt cttggatcca gcgaatacgt cgtctttcat
     4141 tattgttttg tatatatatc caacgttcag cgagcttatc tatagcttct tttaaatgtc
     4201 gttctgcatt actttttccc atatcaggaa atgctagata gaaatcgcca gatgtaattt
     4261 tgaatgtttt ttgaggagtt ttatccagag ggtttaactt tccaatacac atcaatagca
     4321 agcgctgttc ctgtaaagtt agtttgtaac tagcttcaat caaagcattg gatttatatg
     4381 ctattagctc agacatgtcg cttcctactt aatgggatag gcaaaaaagt agtctatccc
     4441 taaattaaag gcaagtcttt tattttctct atgcctaatt tgtgagtatt accgtaaatt
     4501 tctatgccta ttaccgtaaa tttctatgcc tattaccgta aatttctatg cctattaccg
     4561 taaatttcta tgcctatatg tgttttaatt cttattaatc aaagaaataa ataaccgtaa
     4621 aacaagaatt aaaaacaaaa aacaattaaa aaagaaaacc actgtggata actcagaaaa
     4681 atctgtcaga tacatcacgt ttttcggtaa ttaaaaggat gtcgcaaaca acgtttgctc
     4741 ctttttttta aaaaaaacct aaagcacctc tatagctcca tcgccttgtt cgagcaacac
     4801 accacacctt tcttttgtct ccgaccatcc agctactgag tcgctgtttt ttccgtgtaa
     4861 tttaattcgc tacgctcaca gctcatccag ttcgtgatgg tttaaacgct ctgtagtggg
     4921 ttttaagcaa aagtaatcac aaaactaaat tacccttagc cacgatgttt aaattaaaca
     4981 gagagcatta cagaaacatt tacgggggag ggggggagtg aactacttga taacaattac
     5041 gcatattgtc gcgtatgtaa ttaaaatttc ttttgtgacc atctaaaaac tagttatcag
     5101 actctaaaag tatttagtac tcgccaattt ttgtttcttg caaacacaca ccatacgcaa
     5161 aatggaattt tgatagtatt tatttgataa atattaagtt tatttttaat tgttatggct
     5221 atgtaaacat agaactgatg catttctgca tcattctgat gacgaattga tgcaggatat
     5281 aaaatgttga aactttatat atcctatggg taagtatgaa ataaatggtt gcacatcata
     5341 tgtgatatag agcgttaaac tgtaactact gttctcacgc atcaaactga tgcgctgctg
     5401 atgcatcaat gcatcaactt tttcgtgtaa acctatgtca attgatgttc aaaattaata
     5461 actgtgctta ttttaagttt aaattttggc tgaatatgac cagatattaa aatacaaaaa
     5521 atagaatttg atgggttaaa tatctttaaa aaaattcgtt tttaatagag gagcgtttat
     5581 aataattttt ttgaatattt aaccaaaatg atgaactgct accgagagtc attgatagac
     5641 gtttcgcaat tggtaatgta atgattagat taccattaac gagctgttca gtttcaaata
     5701 cattcatttc taacttttca gctaaaatat caatgcttag gttcagttca ttcaaagttt
     5761 cagtgattaa ttcacctacg tgaggtggtt tgtacattct catctattgt aaccttctat
     5821 cgatttttaa agagatatag cctctattta tcacgaaaat caaatgtgtg tatcgttaac
     5881 tcttctgctt attttaaata gtactaccgt cctcgtttta ctcggttggt aaaatcgttg
     5941 aacaccacaa aacaagtttg tgcttttcaa cgatttcagg tcagtttttc agccaactct
     6001 gacgatgtta aaaatacact taacggcaac aaaaaccgtt ataaac
//
