LOCUS       NZ_CP068072             4846 bp    DNA     circular CON 06-FEB-2024
DEFINITION  Staphylococcus equorum strain FDAARGOS_1149 plasmid unnamed3,
            complete sequence.
ACCESSION   NZ_CP068072
VERSION     NZ_CP068072.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357318
            Assembly: GCF_016725305.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus equorum
  ORGANISM  Staphylococcus equorum
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 4846)
  AUTHORS   Sproer,C., Gronow,S., Severitt,S., Schroder,I., Tallon,L.,
            Sadzewicz,L., Zhao,X., Boylan,J., Ott,S., Bowen,H., Vavikolanu,K.,
            Mehta,A., Aluvathingal,J., Nadendla,S., Lowell,S., Myers,T., Yan,Y.
            and Sichtig,H.
  TITLE     FDA dAtabase for Regulatory Grade micrObial Sequences (FDA-ARGOS):
            Supporting development and validation of Infectious Disease Dx tests
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4846)
  AUTHORS   Sproer,C., Gronow,S., Severitt,S., Schroder,I., Tallon,L.,
            Sadzewicz,L., Zhao,X., Boylan,J., Ott,S., Bowen,H., Vavikolanu,K.,
            Mehta,A., Aluvathingal,J., Nadendla,S., Lowell,S., Myers,T., Yan,Y.
            and Sichtig,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (11-JAN-2021) Institute for Genome Sciences, University of
            Maryland School of Medicine, BioPark II, 801 W. Baltimore St., Suite
            619, Baltimore, MD 21201, USA
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method :: SMRT v. 8.0.0, HGAP v. 4, SPAdes v. 3.11.1
            Genome Coverage                   :: 1545.66x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/06/2024 04:18:16
            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)                     :: 2,662
            CDSs (total)                      :: 2,576
            Genes (coding)                    :: 2,546
            CDSs (with protein)               :: 2,546
            Genes (RNA)                       :: 86
            rRNAs                             :: 8, 7, 7 (5S, 16S, 23S)
            complete rRNAs                    :: 8, 7, 7 (5S, 16S, 23S)
            tRNAs                             :: 60
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 30
            CDSs (without protein)            :: 30
            Pseudo Genes (ambiguous residues) :: 0 of 30
            Pseudo Genes (frameshifted)       :: 16 of 30
            Pseudo Genes (incomplete)         :: 11 of 30
            Pseudo Genes (internal stop)      :: 10 of 30
            Pseudo Genes (multiple problems)  :: 6 of 30
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP068072.1.
            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..4846
                     /organism="Staphylococcus equorum"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1149"
                     /culture_collection="DSM:20674"
                     /type_material="type strain of Staphylococcus equorum"
                     /db_xref="taxon:246432"
                     /plasmid="unnamed3"
                     /geo_loc_name="Germany: Braunschweig"
                     /collected_by="DSMZ"
     gene            complement(join(4695..4846,1..793))
                     /locus_tag="I6J06_RS13240"
                     /old_locus_tag="I6J06_13235"
     CDS             complement(join(4695..4846,1..793))
                     /locus_tag="I6J06_RS13240"
                     /old_locus_tag="I6J06_13235"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000277654.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA];
                     GO:0003916 - DNA topoisomerase 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 factor domain-containing
                     protein"
                     /protein_id="WP_016913209.1"
                     /translation="MSKNNYTNHSNHLENHDSDNFSKTGYSNSRLDAHTVCISDPKLSF
                     DAMTIVGNLNRDNAQALSKFMSVEPQIRLWDILQTKFKAKALQEKVYIEYDKVKADSWD
                     RRNMRIEFNPNKLTRDEMIWLKQNIISYMEDDGFTRLDLAFDFEDDLSDYYAMSDKAVK
                     KTIFYGRNGKPETKYFGVRDSNRFIRIYNKKQERKDNADAEVMSEHLWRVEIELKRDMV
                     DYWNDCFSDLHILQPDWKTIQRTADRAIVFMLLSDEEEWGKLHRNSRTKYKNLIKEISP
                     VDLTDLMKSTLKANEKQLQKQIDFWQHEFKFWK"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            complement(1028..1192)
                     /locus_tag="I6J06_RS13245"
                     /old_locus_tag="I6J06_13240"
     CDS             complement(1028..1192)
                     /locus_tag="I6J06_RS13245"
                     /old_locus_tag="I6J06_13240"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001632704.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="CopG family transcriptional regulator"
                     /protein_id="WP_017722131.1"
                     /translation="MVRTKVGITLTEDTLKRLEEIAEQMGLSKSQAISMLINNEYLSKY
                     QSEDKIFKA"
                     /name="CopG family transcriptional regulator"
     gene            complement(1756..2967)
                     /gene="mobV"
                     /locus_tag="I6J06_RS13250"
                     /old_locus_tag="I6J06_13245"
     CDS             complement(1756..2967)
                     /gene="mobV"
                     /locus_tag="I6J06_RS13250"
                     /old_locus_tag="I6J06_13245"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002493196.1"
                     /GO_function="GO:0003677 - DNA binding [Evidence IEA]"
                     /GO_process="GO:0006310 - DNA recombination [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="MobV family relaxase"
                     /protein_id="WP_201626117.1"
                     /translation="MSYSIIRVSKVKTGTNTTGIQKHVQRENNNYENEDIDHSKTYLNY
                     DLVNANKQNFNNLIDEKIEQNYTGKRKIRTDAIKHIDGLITSDNDFFDNQTPEDTKQFF
                     EYAKEFLEQEYGKDNLLYATVHMDEKTPHMHYGVVPITDDGRLSAKEVVGNKKALTEFQ
                     DRFNEYVNQRGYDLDRGQSRQVTNAKHDQVNRYKQKTEYHKQEYERESQKLSHIQQKSS
                     ELIEQYQKSLETLKKPLNVQYEHETEKVGGLFNKEIQETGNVVISQEEFNNFQKQIQAA
                     QTITEDYEHIKSGKALNELKNENSKLREENKDMSETLARANEFIKDLKKHLDNALNVIK
                     VIREIFEKLEQVLGRNKYQHLMNDVSRDNGRMIKAIQILDKQIHPEEYQEEKNTQKRDR
                     GRGR"
                     /name="mobV"
     gene            complement(3154..4533)
                     /gene="tet(K)"
                     /locus_tag="I6J06_RS13255"
                     /old_locus_tag="I6J06_13250"
     ARG             complement(3158..4533)
                     /name="tet(K)"
                     /gene="tet(K)"
                     /gene_name="tetracycline efflux MFS transporter Tet(K)"
                     /tool="amrfinderplus"
                     /drug_class="TETRACYCLINE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          complement(2..788)
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.239"
                     /coverage="99.0"
                     /evalue="0.0"
     Typing          complement(1760..2967)
                     /name="MOBV"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="98.015"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 gaagctttcc ccattcttct tcatcactca ataacataaa aactattgct ctatccgcag
       61 tgcgttggat agttttccaa tctggttgca agatatgtaa atcactaaag caatcattcc
      121 agtaatccac catatctctt ttaagttcga tttctacacg ccataaatgt tcagacataa
      181 cttcagcatc tgcattatct ttacgttctt gctttttatt ataaattcta ataaatctat
      241 tactatctct cacgccaaaa tattttgttt ctggcttacc attacgacca taaaaaatag
      301 ttttcttaac tgctttatca gacattgcat agtagtcact caaatcatct tcaaaatcaa
      361 aggctaaatc taatcttgta aaaccgtcat cttccatgta gcttattata ttttgtttta
      421 accaaatcat ttcatctcgt gtaagtttgt ttggattaaa ttcaatacgc atattacgtc
      481 tatcccaact atctgctttc actttgtcat attcaatata aactttttct tgaagtgctt
      541 tagctttaaa ctttgtttga agaatatccc aaagtcttat ttggggctct acactcataa
      601 atttagaaag ggcttgagcg ttgtctcggt tgagatttcc aacgatcgtc attgcatcaa
      661 aacttaattt tggatcagat atgcacacag tatgtgcgtc caaccggcta ttagagtagc
      721 cggttttaga aaaattgtct gaatcgtgat tttctaagtg atttgaatga tttgtataat
      781 tatttttact cataaaaaat cgactcctta atttaattta agaagtcgct cacccgaata
      841 tatatcttga agaataaact aatatcgttt aatatctaga tatacaaatt aagaacaaaa
      901 acatcaactg tttttcttta aggtaagtcg ctatcacaaa ctttggcgag ggagtgagcg
      961 acttcttttt atttgcttat taatataaca ctatcaaatg tcttggtcta attgattaag
     1021 acttttttta tgccttaaat attttatctt cgctttgata cttacttaaa tactcgttat
     1081 taatcaacat agaaatagcc tgggacttac ttaagcccat ttgttctgca atttcttcaa
     1141 gtcttttcaa agtatcttca gttaaagtta tacctacttt tgtacgaacc atttttactc
     1201 cccatttcta actattaata agtttatttt attccattta tacatacatg tctagagatt
     1261 tctatacaat aactcataaa gtccctaaaa tgtagcctat ttgtagcttt gtgaaaaatc
     1321 gctataaccc ttgatattaa aggtctaaac acttcacaat ctctgatttg gcactcggca
     1381 cttaaaaggg ggggtcgtag tagtccccct ttttccaact aaatttgata aattctaaag
     1441 caaaatacaa aaacagggct aacagatcac ttcgtgaagt tagccctaaa acctaaacca
     1501 ttaactcaat ttatttttta ttccaatttc ctttttggtc ggaaccaaca attccatgtg
     1561 atgttgagtt ggtactttct tgggattaat cccaattcaa gcccaaccaa ctcgctaaca
     1621 agttagctat cacatttcat tattccaacc aaaaagtttt ctcggcataa atgtgggtat
     1681 aattaaatta gatatactta aaacaattct ttaaaggttt tgaacgccat tctattttta
     1741 gagtggcgtt tttatttatc tacctctacc cctatcacgt ttttgcgtat tcttttcttc
     1801 ttgatattct tcaggatgta tttgtttatc taatatttgt atcgccttta tcatacgacc
     1861 attatctcta cttacatcat tcatcaaatg ctggtattta tttctaccaa gaacttgctc
     1921 taacttctca aaaatctctc taataacttt aataacatta agcgcattat caaggtgttt
     1981 tttgaggtct tttataaact catttgctct tgctaaagtt tcagacatat ccttgttttc
     2041 ttctctaagc ttactatttt catttttaag ctcattcaac gctttaccag acttaatatg
     2101 ctcataatct tctgtaatcg tttgtgctgc ttgtatttgt ttctgaaagt tattaaattc
     2161 ttcttggctt attacaacat tccctgtttc ttgtatttct ttgttgaaca atccacctac
     2221 tttttcagtt tcatgttcat attggacgtt taaaggcttt ttaagcgttt ctaatgattt
     2281 ttggtattgt tctatcaact cactgctttt ttgttgtata tggcttaatt tttggctctc
     2341 acgctcatat tcttgcttat gatattctgt tttttgctta tatcggttta cctgatcatg
     2401 tttagcattt gtaacttgtc ttgattgtcc tcggtccaaa tcatacccac gttgattaac
     2461 atattcgtta aatctatctt gaaactctgt taacgccttt ttattcccta caacttcttt
     2521 tgcacttaat ctaccgtcat cagtgatagg gacaacacca taatgcatat gtggggtttt
     2581 ttcgtccatg tgaactgttg catataataa attatcttta ccgtattctt gttctaaaaa
     2641 ctctttagca tattcaaaaa actgctttgt atcttctggc gtttgattat caaagaaatc
     2701 attgtctgat gtaattaaac catcaatgtg tttaatcgcg tctgttctaa tttttctttt
     2761 gcctgtataa ttctgttcaa ttttttcatc aatcaagtta ttaaaattct gtttattagc
     2821 atttaccaaa tcataattta agtaagtttt actatggtct atatcttcat tttcataatt
     2881 attattttct ctttgaacat gtttttgtat gcctgttgta tttgttccag ttttaacttt
     2941 tgaaactcta ataatagaat acgacatata aaaatcactc ctcagcacta aggttttata
     3001 ggtatttaat actttaagtc taacacacta gacttatttt acaataagtc gttaatacgt
     3061 gtgctctgcg aggcttaaac ctgtttttgc taacgcaaaa aatgagtggc aaaatgctag
     3121 ccactcatag ttctaaacca aaatataata taactattca aactgctttt cagaacgttt
     3181 aaatacaata atcgtcaaaa gacaacataa aataataagg atagccatgg ctacaagaat
     3241 attactatac actccagaag aataatttat aaattccaga actagtttac gattaatcaa
     3301 ttgtagtgac aataaacctc ctacaattgc tatacctgtt ccctctgata aaaaacttgt
     3361 gaaatttagc aaactcattc cagaagcaac ttcttcttca gaaagactac ttgatactat
     3421 ttttgatata actgttttag taaaagataa tccgcccata acaaatataa acataaaagt
     3481 agtcaaccac atactaaact caacaaaaaa tgcaatagtt aaaaaactta tagagataga
     3541 caatgatcct aaaataaaaa caaataatga tccttttcta tccactaaaa aaccaccaaa
     3601 ataaccaaaa acaataacac tcatggttcc aggaaaaata acactattac ctattgtcgc
     3661 tacatttaca tgataaatag ttttcatcat ataaggcacc attgatataa aaccagctac
     3721 tatagaaaat attagcccac cagaaaacaa accaagcata aacggaatgt ttttccctag
     3781 tttaggatta ataaaagggt tagaaactct tgaaatatgt ttaataaaaa tcacaaaaaa
     3841 gattgtgaag agtattaaaa aagtccaatt ataatttgtc gtaaataaca taaaacatat
     3901 aatacttata gacattaaaa caatacctac gatatctaat gtattttttg ttgatttacc
     3961 aggtaccatt actttaataa gaaaaggtat agttactatt gtaatcatag gaagtataag
     4021 taggtaagac caatgaatat aatgtgctat tattccccct attgaaggac ctaacccttc
     4081 acctaaagct acaattgatc ctataaaacc aaaggctttg ccttgttttt ttcttgtaat
     4141 atttctagct acaaccacca taatcagtga agggaatgca gcagatccta ctccttgtac
     4201 taacctacca aaaatcaaaa taaaaaagtg attgtgacca ataaaagcaa tcaatgaacc
     4261 aagacagctc aaactaatac caataattaa caattttttt atatttatat aatcagataa
     4321 ttttccatat actgctgttc ctatcgaaaa agttaacata tatgcagtgt ttacccagtt
     4381 tgtaattcca ggagtagtat taaaatgatt tgcaatatca ggtaaagaaa catttaaaac
     4441 catttcattt aatacactaa aaaatgaaag aatacaaagc caaaataaaa cgctataaaa
     4501 caaaccttta aattttttat ataaactaaa caattttacc tctttacttg aggtgactaa
     4561 agtttatagg ggtaaattat tctttcacct catataaatt ccccaaattt ttaaatagac
     4621 acttcataaa aaaatcctcc taaattagaa tagtttaaat atatcatttt tgttcagtaa
     4681 tattaatatg tacactattt ccaaaattta aattcatgtt gccaaaaatc gatttgtttt
     4741 tgcaattgtt tttcgttcgc ttttaaagtc gatttcatta agtccgttaa atcgactggc
     4801 gaaatttctt ttatcaaatt cttatatttt gttctagaat ttctgt
//
