LOCUS       NZ_MH090916             4397 bp    DNA     circular CON 20-JUL-2023
DEFINITION  Staphylococcus epidermidis strain 25S plasmid pLF25, complete
            sequence.
ACCESSION   NZ_MH090916
VERSION     NZ_MH090916.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN14228258
KEYWORDS    RefSeq.
SOURCE      Staphylococcus epidermidis
  ORGANISM  Staphylococcus epidermidis
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 4397)
  AUTHORS   Fisarova,L., Doskar,J. and Pantucek,R.
  TITLE     Variability of resistance plasmids in coagulase-negative
            staphylococci and their interspecies horizontal transfer
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 4397)
  AUTHORS   Fisarova,L., Doskar,J. and Pantucek,R.
  TITLE     Direct Submission
  JOURNAL   Submitted (16-MAR-2018) Experimental Biology, Masaryk University,
            Kamenice 5, Brno 62500, Czech Republic
COMMENT     ##Assembly-Data-START##
            Assembly Method                   :: A5-miseq pipeline 2015
            Sequencing Technology             :: Illumina
            ##Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 07/20/2023 02:38:56
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.5
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 6
            CDSs (total)                      :: 6
            Genes (coding)                    :: 5
            CDSs (with protein)               :: 5
            Genes (RNA)                       :: 0
            tRNAs                             :: 0
            ncRNAs                            :: 0
            Pseudo Genes (total)              :: 1
            CDSs (without protein)            :: 1
            Pseudo Genes (ambiguous residues) :: 0 of 1
            Pseudo Genes (frameshifted)       :: 0 of 1
            Pseudo Genes (incomplete)         :: 1 of 1
            Pseudo Genes (internal stop)      :: 0 of 1
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            MH090916.1.
            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 epidermidis"
                     /mol_type="genomic DNA"
                     /strain="25S"
                     /isolation_source="animal farm, personnel throat"
                     /db_xref="taxon:1282"
                     /plasmid="pLF25"
                     /geo_loc_name="Czech Republic"
                     /collection_date="2015-08"
     gene            complement(join(3499..4397,1..46))
                     /locus_tag="HTR56_RS00005"
                     /old_locus_tag="pLF25_6"
     CDS             complement(join(3499..4397,1..46))
                     /locus_tag="HTR56_RS00005"
                     /old_locus_tag="pLF25_6"
                     /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(295..486)
                     /locus_tag="HTR56_RS00010"
                     /old_locus_tag="pLF25_1"
     CDS             complement(295..486)
                     /locus_tag="HTR56_RS00010"
                     /old_locus_tag="pLF25_1"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002440613.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_014532527.1"
                     /translation="MGLLRVQRLNVNKAIGIKQQRGLKKMSKKKKINLAISIAQVVVQA
                     LILYNTYQQYKYSKKYSA"
                     /name="hypothetical protein"
     gene            complement(607..1236)
                     /locus_tag="HTR56_RS00015"
                     /old_locus_tag="pLF25_2"
     CDS             complement(607..1236)
                     /locus_tag="HTR56_RS00015"
                     /old_locus_tag="pLF25_2"
                     /inference="COORDINATES: protein motif:HMM:NF015839.2"
                     /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_223876725.1"
                     /translation="MQTRSKLTGTQSQKIQKTLENEELQELKKQNKLVIKYISEMKEQQ
                     DLREKELQAIKSSLKKTTEDFQGRGKKVHNDFVRLLQKNLNRVNAEDIEIEVRKDVYGV
                     REEIHSMLREVKQSHEHYQKRQKQLFTGIGAMLLVFMLFALIMTIGRDFMGFLHVDVLQ
                     NAIASKIKASEGFISVLWYIAYGLPYILAIGLFIWLYEWIRARFHD"
                     /name="DUF334 domain-containing protein"
     gene            complement(<1349..1993)
                     /locus_tag="HTR56_RS00020"
                     /old_locus_tag="pLF25_3"
                     /pseudo=""
     CDS             complement(<1349..1993)
                     /locus_tag="HTR56_RS00020"
                     /old_locus_tag="pLF25_3"
                     /inference="COORDINATES: protein motif:HMM:NF015397.2"
                     /note="incomplete; partial in the middle of a contig;
                     missing C-terminus; Derived by automated computational
                     analysis using gene prediction method: Protein Homology."
                     /pseudo=""
                     /codon_start=1
                     /transl_table=11
                     /product="relaxase/mobilization nuclease domain-containing
                     protein"
                     /name="relaxase/mobilization nuclease domain-containing
                     protein"
     gene            complement(1975..2373)
                     /gene="mobC"
                     /locus_tag="HTR56_RS00025"
                     /old_locus_tag="pLF25_4"
     CDS             complement(1975..2373)
                     /gene="mobC"
                     /locus_tag="HTR56_RS00025"
                     /old_locus_tag="pLF25_4"
                     /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"
     gene            complement(2643..3491)
                     /gene="str"
                     /locus_tag="HTR56_RS00030"
                     /old_locus_tag="pLF25_5"
     ARG             complement(2647..3491)
                     /name="str"
                     /gene="str"
                     /gene_name="streptomycin adenylyltransferase Str"
                     /tool="amrfinderplus"
                     /drug_class="AMINOGLYCOSIDE"
                     /identity="100.0"
                     /coverage="100.0"
     Typing          2345..2579
                     /name="MOBP"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="80.0"
                     /coverage="100.0"
                     /evalue="1.4099999999999999e-40"
     Typing          complement(3500..4397)
                     /name="rep_cluster_1118"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="95.0"
                     /evalue="0.0"
     Typing          complement(1035..1993)
                     /name="MOBP"
                     /typing="relaxase"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 tttccaaact ttgttttgcc tgaatttctt ctgctttttt actcataaaa aatcgactcc
       61 ttattttgtt taagaagtcg ctcacccgaa tatatatctt gaagaataaa ccaatatcgt
      121 ttaatatcta gatatacaaa aattaagaaa aaaacaccaa ctgtttttct ttaaggtaag
      181 tcgcattcac aaactttggt cagggagtga gcgacttctt tttttgtttt tttatttgca
      241 tattaatata acactaacaa aaggcttggt ctattcagac taagtctttt tttattaggc
      301 tgaatatttt ttagaatatt tatattgctg ataagtgtta taaagtatta acgcctgcac
      361 tactacttga gcaattgata ttgctaaatt aatctttttc ttcttactca ttttcttcaa
      421 ccccctttgt tgctttattc caattgcttt atttacattg agcctctgta cccttaacaa
      481 acccaaaact tgtcgaatgg tcgggctaat agctcacgct atgccgacat tcgtctgcaa
      541 gtttagttaa gggtacttct caatataaat aaattttctc ggcataaaag cctgatcata
      601 ctttgtttaa tcatggaatc ttgctcttat ccactcatac aaccaaataa atagccctat
      661 agcgagtata taaggtaaac cataagcaat gtaccataaa actgaaataa agccctcaga
      721 agcctttatt ttgcttgcta tggcattctg taatacatct acatgtaaaa agcccataaa
      781 atctctgcca atcgtcataa tcaaagcaaa aagcataaac actaataaca ttgcaccaat
      841 accagtaaat aattgctttt gtcttttttg ataatgttca tgtgattgtt taacttcacg
      901 caacatcgaa tgaatttctt ctcgaactcc ataaacatct tttcgaacct ctatctcaat
      961 atcttctgca ttcactcgat ttaaattctt ttgtaacaaa cgaacaaaat cattatggac
     1021 ttttttacct ctaccttgaa agtcctccgt cgtctttttc aaactcgact tgattgcctg
     1081 caattccttt tctctcaagt cctgttgttc tttcatctct gatatatatt ttattactag
     1141 cttgttttgt ttcttcagtt cttgcaattc ttcgttttct aaggtcttct gaattttctg
     1201 cgactgcgtc ccagtcaact tcgaacgtgt ctgcatattc atcgtattct cgttcttctt
     1261 ctcgttctcg tctgaatttc tcgattgcaa agccattttc aatcactcct ttgtcataag
     1321 aatcgcccaa cttattccca cgtacttttt tatcttcttc aatgtgtcta tacgttacgt
     1381 tgtttttcgt tactctcgtg atttcaacac ctttttcttt tagcaaagta ttaaattctt
     1441 caaagtctac tgcgttatcc tttgtttctt caactgccat tcttatatca tttttccatg
     1501 accttttatc tttatctatc atgttctgtt ctgccaacgt atatctgatt tctgatgact
     1561 tttctggcac agataaacca cgttcttcac ataactgatc attcgccttt tttataaaat
     1621 cacgttgttc tttgtttgac tgatacttgt tgcctgtttc taaatttact gaattaataa
     1681 taatgtgatt gtgataatgg tctttgtctg tatgtgtata aactgcaact tgataatctg
     1741 gtgcaatttt tttagctaat tctaaaccta tctcattaca ctctttagct gttacttcgc
     1801 caggcttaaa agattgaatg actgtatgtg cttgaacacc attctctttg ccatataacg
     1861 ccctagtttg cttaaaatat gatttagcat aatcaacatc acaatttaag ccgctttttt
     1921 cttctgcacg ttcttctgcg taattaatgg cacgacttgc cgacttcgta ttgcctaatt
     1981 tagttgttgc catatcttat gcaactcctt tttcacatca tcaaattgct tttctaaatc
     2041 atgatatttc tcttctggta aatgtgtagc cttatcttta ttttgattaa accacttagc
     2101 aatctgattc acattactac ccaaatgact taaatctttg gcaatcgatt gtcgcgtttc
     2161 tttgtctaat tttggcgaca ctaatcgact gccttgtgcc tttttcttaa cgaaattagg
     2221 cactgtcata ttcaaagttt ctgccgactg tttcaacttt gaatattcct gttcactcac
     2281 tctgaaacta atttgttttg gctctttgcg gttgggttta cggtttcccc caacagacaa
     2341 atcgctagcc aaattatctt tatgttcgtt cacaagtccc accacctttc tgacgaaaaa
     2401 tattcctttt cataaatata gcttataata taatctatat tttctcaagt aatatagtgg
     2461 tttggcaagc gtcgtatatt ctagccactt cgttctgaat ataccggctt gctgggatta
     2521 atcccagacc ctttatgttt ttgctaacgc aaaaaatgag tggcaaaatg ctagccactc
     2581 atagttcaaa accaaattca aaatcaaaac aaaagcaacc aaaaatgtgg ttgctaataa
     2641 aattaattct cataattatt acgaataaaa ttytcaatat ttttttcgta atttggatag
     2701 ttataatttc ctaaacaact tactttattt gaataatatt taaataattc acaacaaagc
     2761 ttaaaagatt ggtatgtctt tctatatcca ttcatctcaa aagtagctaa aagcatattg
     2821 aattctttat cagttaaata tttgtttata aacttataat tctttcctaa actaaaatca
     2881 aaacccctat taaagccaat ataccaagaa atcattctta ataattcagg acgtaaaata
     2941 ttattgaaat gatctaaagc aaataatatt tctcttctaa aaacaccctt tgctacatac
     3001 gttgagacac tccaaaactc attacagcaa tcataaaatt ctcgttctgt tggttttttt
     3061 aaccaataat ttgagtcatc tggaacaatt tcttgagtta ctaaattatc tttatcaact
     3121 aaaattttta caagaccatc agaatcacta aaataacgat ttaaatcttt taaattaatt
     3181 aatgtaatat ccatttttat gccatcttta aaatacatta tataactgta accataatct
     3241 aaatcaggtg ggaataattc catatcttct ggtttctgta taaacaataa ttctccaaat
     3301 aaacttaacc aactttcttc atgtgtgaaa tactcaatat ctgatacgaa aaaagcaaaa
     3361 tcataatctt gaaacttatc tttttttata ttttcattag ttcttgaacc ctcgagagca
     3421 ataattttta cattgcttcg ttgataagca aattcagaaa ctaaatttaa aatttctttt
     3481 tcagtcctca ttgttttttc actcccaaaa tctaaattca cgctgccaaa attcaatctg
     3541 cttttgcaat tgtttttcat tctcttttaa agtcaatttc attaagtccg ttaaatcaat
     3601 ttctgaaata ctttttaaca tttctctgta tttatttttt gtacgtcttt ctaatttacc
     3661 ccatgtactt tcttcatgaa ttagcatata aatcattgct tggtctttta ctttttctaa
     3721 actagaccaa tctggtttca aaatatgtaa atcattaaaa caatcgttcc aataatcaac
     3781 catatctctt tttaattcaa tttctacacg ccataagtgt tcagacataa cttcaatgtc
     3841 tgcattatcc ttacgttctt gttttttatt ataaattcta ataaatctat cactgtcacg
     3901 aacaccaaaa tattttgttt ctggtttacc gttacgacca taaaaaatag ttttcttaac
     3961 tgatttatca gtcatcgcat aataatcgct caaatcgtct tcaaaatcaa aagccaaatc
     4021 taatcttgta aaaccatcat cttccatgta gtcaatgatg ttttgtttta accaaagcat
     4081 ttcttcatgc gtaagtttat taggattaaa ttcaacacgc atattacgtc tatcccacgc
     4141 atctgctttt actttatcat attcgatgta aactttttct tgtagagcct tagctttaaa
     4201 tttggtttgt aatatatccc aaagtctaat ttgtggcgca atactcataa attcagacag
     4261 tttgtgagca ttgttcttat taagattccc aacaattgtc atagcatcaa agtgtaattt
     4321 tggttcgggg gtgtacataa tatgtcggtt taaccggcta ttagagtatc cggttttaga
     4381 aaaatttgag ttttcct
//
