LOCUS       NZ_CP068074             4397 bp    DNA     circular CON 06-FEB-2024
DEFINITION  Staphylococcus condimenti strain FDAARGOS_1148 plasmid unnamed1,
            complete sequence.
ACCESSION   NZ_CP068074
VERSION     NZ_CP068074.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN16357317
            Assembly: GCF_016724565.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus condimenti
  ORGANISM  Staphylococcus condimenti
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 4397)
  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  JOURNAL   Unpublished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 4397)
  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                   :: 1434.04x
            Sequencing Technology             :: Pacbio; Illumina
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 02/06/2024 04:22:18
            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)                     :: 2,595
            CDSs (total)                      :: 2,512
            Genes (coding)                    :: 2,479
            CDSs (with protein)               :: 2,479
            Genes (RNA)                       :: 83
            rRNAs                             :: 6, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 61
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 33
            CDSs (without protein)            :: 33
            Pseudo Genes (ambiguous residues) :: 0 of 33
            Pseudo Genes (frameshifted)       :: 14 of 33
            Pseudo Genes (incomplete)         :: 15 of 33
            Pseudo Genes (internal stop)      :: 10 of 33
            Pseudo Genes (multiple problems)  :: 6 of 33
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP068074.1.
            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..4397
                     /organism="Staphylococcus condimenti"
                     /mol_type="genomic DNA"
                     /strain="FDAARGOS_1148"
                     /culture_collection="DSM:11674"
                     /type_material="type strain of Staphylococcus condimenti"
                     /db_xref="taxon:70255"
                     /plasmid="unnamed1"
                     /geo_loc_name="Germany: Braunschweig"
                     /collected_by="DSMZ"
     gene            complement(join(3648..4397,1..99))
                     /gene="str"
                     /locus_tag="I6J05_RS12860"
                     /old_locus_tag="I6J05_12860"
     CDS             complement(join(3648..4397,1..99))
                     /gene="str"
                     /locus_tag="I6J05_RS12860"
                     /old_locus_tag="I6J05_12860"
                     /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="streptomycin adenylyltransferase Str"
                     /protein_id="WP_031915899.1"
                     /translation="MRTEKEILNLVSEFAYQRSNVKIIALEGSRTNENIKKDKFQDYDF
                     AFFVSDIEYFTHEESWLSLFGELLFIQKPEDMELFPPDLDYGYSYIMYFKDGIKMDITL
                     INLKDLNRYFSDSDGLVKILVDKDNLVTQEIVPDDSNYWLKKPTEREFYDCCNEFWSVS
                     TYVAKGVFRREILFALDHFNNILRPELLRMISWYIGFNRGFDFSLGKNYKFINKYLTDK
                     EFNMFLATFEMNGYRKTYQSFKLCCELFKYYSNKVSCLGNYNYPNYEKNIENFIRNNYE
                     N"
                     /name="str"
     gene            complement(107..1051)
                     /locus_tag="I6J05_RS12865"
                     /old_locus_tag="I6J05_12865"
     CDS             complement(107..1051)
                     /locus_tag="I6J05_RS12865"
                     /old_locus_tag="I6J05_12865"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011167206.1"
                     /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_011167206.1"
                     /translation="MSKKAEEIQAKQSLEKENSNFSKTGYSNSRLNRHIMYTPEPKLHF
                     DAMTIVGNLNKNNAHKLSEFMSIAPQIRLWDILQTKFKAKALQEKVYIEYDKVKADAWD
                     RRNMRVEFNPNKLTHEEMLWLKQNIIDYMEDDGFTRLDLAFDFEDDLSDYYAMTDKSVK
                     KTIFYGRNGKPETKYFGVRDSDRFIRIYNKKQERKDNADIEVMSEHLWRVEIELKRDMV
                     DYWNDCFNDLHILKPDWSSLEKVKDQAMIYMLIHEESTWGKLERRTKNKYREMLKSISE
                     IDLTDLMKLTLKENEKQLQKQIEFWQREFRFWE"
                     /name="replication initiation factor domain-containing
                     protein"
     gene            complement(1612..2067)
                     /locus_tag="I6J05_RS12870"
                     /old_locus_tag="I6J05_12870"
     CDS             complement(1612..2067)
                     /locus_tag="I6J05_RS12870"
                     /old_locus_tag="I6J05_12870"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002485179.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="DUF334 domain-containing protein"
                     /protein_id="WP_000753824.1"
                     /translation="MKKTTEDFQGRGKKVHNDFVRLLQKNLNRVNAEDIEIEVRKDVYG
                     VREEIHSMLREVKQSHEHYQKRQKQLFTGIGAMLLVFMLFALIMTIGRDFMGFLHVDVL
                     QNAIASKIKASEGFISVLWYIAYGLPYILAIGLFIWLYEWIRARFHD"
                     /name="DUF334 domain-containing protein"
     gene            complement(2036..2998)
                     /locus_tag="I6J05_RS12875"
                     /old_locus_tag="I6J05_12875"
     CDS             complement(2036..2998)
                     /locus_tag="I6J05_RS12875"
                     /old_locus_tag="I6J05_12875"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_011167204.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /protein_id="WP_000246202.1"
                     /translation="MATTKLGNTKSASRAINYAEERAEEKSGLNCDVDYAKSYFKQTRA
                     LYGKENGVQAHTVIQSFKPGEVTAKECNEIGLELAKKIAPDYQVAVYTHTDKDHYHNHI
                     IINSVNLETGNKYQSNKEQRDFIKKANDQLCEERGLSVPEKSSEIRYTLAEQNMIDKDK
                     RSWKNDIRMAVEETKDNAVDFEEFNTLLKEKGVEITRVTKNNVTYRHIEEDKKVRGNKL
                     GDSYDKGVIENGFAIEKFRREREEEREYDEYADTFEVDWDAVAENSEDLRKRRIARTEE
                     TKQASNKIYIRDERTTGLERKGIAGNQVEFEKDDGGLSR"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(2980..3378)
                     /gene="mobC"
                     /locus_tag="I6J05_RS12880"
                     /old_locus_tag="I6J05_12880"
     CDS             complement(2980..3378)
                     /gene="mobC"
                     /locus_tag="I6J05_RS12880"
                     /old_locus_tag="I6J05_12880"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002489523.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="plasmid mobilization relaxosome protein MobC"
                     /protein_id="WP_001002114.1"
                     /translation="MNEHKDNLASDLSVGGNRKPNRKEPKQISFRVSEQEYSKLKQSAE
                     TLNMTVPNFVKKKAQGSRLVSPKLDKETRQSIAKDLSHLGSNVNQIAKWFNQNKDKATH
                     LPEEKYHDLEKQFDDVKKELHKIWQQLN"
                     /name="mobC"
     Typing          complement(108..1051)
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.894"
                     /coverage="100.0"
                     /evalue="0.0"
     Typing          complement(2040..2998)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 ttcattagtt cttgaaccct cgagagcaat aatttttaca ttgcttcgtt gataagcaaa
       61 ttcagaaact aaatttaaaa tttctttttc agtcctcatt gttttttcac tcccaaaatc
      121 taaattcacg ctgccaaaat tcaatctgct tttgcaattg tttttcattc tcttttaaag
      181 tcaatttcat taagtccgtt aaatcaattt ctgaaatact ttttaacatt tctctgtatt
      241 tattttttgt acgtctttct aatttacccc atgtactttc ttcatgaatt agcatataaa
      301 tcattgcttg gtcttttact ttttctaaac tagaccaatc tggtttcaaa atatgtaaat
      361 cattaaaaca atcgttccaa taatcaacca tatctctttt taattcaatt tctacacgcc
      421 ataagtgttc agacataact tcaatgtctg cattatcctt acgttcttgt tttttattat
      481 aaattctaat aaatctatca ctgtcacgaa caccaaaata ttttgtttct ggtttaccgt
      541 tacgaccata aaaaatagtt ttcttaactg atttatcagt catcgcataa taatcgctca
      601 aatcgtcttc aaaatcaaaa gccaaatcta atcttgtaaa accatcatct tccatgtagt
      661 caatgatgtt ttgttttaac caaagcattt cttcatgcgt aagtttatta ggattaaatt
      721 caacacgcat attacgtcta tcccacgcat ctgcttttac tttatcatat tcgatgtaaa
      781 ctttttcttg tagagcctta gctttaaatt tggtttgtaa tatatcccaa agtctaattt
      841 gtggcgcaat actcataaat tcagacagtt tgtgagcatt gttcttatta agattcccaa
      901 caattgtcat agcatcaaag tgtaattttg gttcgggagt gtacataata tgtcggttta
      961 accggctatt agagtatccg gttttagaaa aatttgagtt ttccttttcc aaactttgtt
     1021 ttgcctgaat ttcttctgct tttttactca taaaaaatcg actccttatt ttgtttaaga
     1081 agtcgctcac ccgaatatat atcttgaaga ataaaccaat atcgtttaat atctagatat
     1141 acaaaaatta agaaaaaaaa caccaactgt ttttctttaa ggtaagtcgc attcacaaac
     1201 tttggtcagg gagtgagcga cttctttttt tgttttttta tttgcatatt aatataacac
     1261 taacaaaagg cttggtctat tcagactaag tcttttttta ttaggctgaa tattttttag
     1321 aatatttata ttgctgataa gtgttataaa gtattaacgc ctgcactact acttgagcaa
     1381 ttgatattgc taaattaatc tttttcttct tactcatttt cttcaacccc tttgttgctt
     1441 tattccaatt gctttattta cattgagcct ctgtaccctt aacaaaccca aaacttgtcg
     1501 aatggtcggg ctaatagctc acgctatgcc gacattcgtc tgcaagttta gttaagggta
     1561 cttctcaata taaataaatt ttctcggcat aaaagcctga tcatactttg tttaatcatg
     1621 gaatcttgct cttatccact catacaacca aataaatagc cctatagcga gtatataagg
     1681 taaaccataa gcaatgtacc ataaaactga aataaagccc tcagaagcct ttattttgct
     1741 tgctatggca ttctgtaata catctacatg taaaaagccc ataaaatctc tgccaatcgt
     1801 cataatcaaa gcaaaaagca taaacactaa taacattgca ccaataccag taaataattg
     1861 cttttgtctt ttttgataat gttcatgtga ttgtttaact tcacgcaaca tcgaatgaat
     1921 ttcttctcga actccataaa catcttttcg aacctctatc tcaatatctt ctgcattcac
     1981 tcgatttaaa ttcttttgta acaaacgaac aaaatcatta tggacttttt tacctctacc
     2041 ttgaaagtcc tccgtcgtct ttttcaaact cgacttgatt gcctgcaatt ccttttctct
     2101 caagtcctgt tgttctttca tctctgatat atattttatt actagcttgt tttgtttctt
     2161 cagttcttgc aattcttcgt tttctaaggt cttctgaatt ttctgcgact gcgtcccagt
     2221 caacttcgaa cgtgtctgca tattcatcgt attctcgttc ttcttctcgt tctcgtctga
     2281 atttctcgat tgcaaagcca ttttcaatca ctcctttgtc ataagaatcg cccaacttat
     2341 tcccacgtac ttttttatct tcttcaatgt gtctatacgt tacgttgttt ttcgttactc
     2401 tcgtgatttc aacacctttt tcttttagca aagtattaaa ttcttcaaag tctactgcgt
     2461 tatcctttgt ttcttcaact gccattctta tatcattttt ccatgacctt ttatctttat
     2521 ctatcatgtt ctgttctgcc aacgtatatc tgatttctga tgacttttct ggcacagata
     2581 aaccacgttc ttcacataac tgatcattcg ccttttttat aaaatcacgt tgttctttgt
     2641 ttgactgata cttgttgcct gtttctaaat ttactgaatt aataataatg tgattgtgat
     2701 aatggtcttt gtctgtatgt gtataaactg caacttgata atctggtgca atttttttag
     2761 ctaattctaa acctatctca ttacactctt tagctgttac ttcgccaggc ttaaaagatt
     2821 gaatgactgt atgtgcttga acaccattct ctttgccata taacgcccta gtttgcttaa
     2881 aatatgattt agcataatca acatcacaat ttaagccgct tttttcttct gcacgttctt
     2941 ctgcgtaatt aatggcacga cttgccgact tcgtattgcc taatttagtt gttgccatat
     3001 cttatgcaac tcctttttca catcatcaaa ttgcttttct aaatcatgat atttctcttc
     3061 tggtaaatgt gtagccttat ctttattttg attaaaccac ttagcaatct gattcacatt
     3121 actacccaaa tgacttaaat ctttggcaat cgattgtcgc gtttctttgt ctaattttgg
     3181 cgacactaat cgactgcctt gtgccttttt cttaacgaaa ttaggcactg tcatattcaa
     3241 agtttctgcc gactgtttca actttgaata ttcctgttca ctcactctga aactaatttg
     3301 ttttggctct ttgcggttgg gtttacggtt tcccccaaca gacaaatcgc tagccaaatt
     3361 atctttatgt tcgttcacaa gtcccaccac ctttctgacg aaaaatattc cttttcataa
     3421 atatagctta taatacaatc tatattttct caagtaatat agtggtttgg caagcgtcgt
     3481 atattctagc cacttcgttc tgaatatacc ggcttgctgg gattaatccc agacccttta
     3541 tgtttttgct aacgcaaaaa atgagtggca aaatgctagc cactcatagt tcaaaaccaa
     3601 attcaaaatc aaaacaaaag caaccaaaaa tgtggttgct aataaaatta attctcataa
     3661 ttattacgaa taaaattctc aatatttttt tcgtaatttg gatagttata atttcctaaa
     3721 caacttactt tatttgaata atatttaaat aattcacaac aaagcttaaa agattggtat
     3781 gtctttctat atccattcat ctcaaaagta gctaaaaaca tattgaattc tttatcagtt
     3841 aaatatttgt ttataaactt ataattcttt cctaaactaa aatcaaaacc cctattaaag
     3901 ccaatatacc aagaaatcat tcttaataat tcaggacgta aaatattatt gaaatgatct
     3961 aaagcaaata atatttctct tctaaaaaca ccctttgcta catacgttga gacactccaa
     4021 aactcattac agcaatcata aaattctcgt tctgttggtt tttttaacca ataatttgag
     4081 tcatctggaa caatttcttg agttactaaa ttatctttat caactaaaat ttttacaaga
     4141 ccatcagaat cactaaaata acgatttaaa tcttttaaat taattaatgt aatatccatt
     4201 tttatgccat ctttaaaata cattatataa ctgtaaccat aatctaaatc aggtgggaat
     4261 aattccatat cttctggttt ctgtataaac aataattctc caaataaact taaccaactt
     4321 tcttcatgtg tgaaatactc aatatctgat acgaaaaaag caaaatcata atcttgaaac
     4381 ttatcttttt ttatatt
//
