LOCUS       NZ_CP073880             6455 bp    DNA     circular CON 17-APR-2024
DEFINITION  Staphylococcus epidermidis strain B1286247 plasmid p2B1286247,
            complete sequence.
ACCESSION   NZ_CP073880
VERSION     NZ_CP073880.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18699893
            Assembly: GCF_019330045.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus epidermidis
  ORGANISM  Staphylococcus epidermidis
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 6455)
  AUTHORS   Papan,C., Schroder,M., Hoffmann,M., Knoll,H., Last,K., Albrecht,F.,
            Geisel,J., Fink,T., Gartner,B.C., Mellmann,A., Volk,T., Berger,F.K.
            and Becker,S.L.
  TITLE     Combined antibiotic stewardship and infection control measures to
            contain the spread of linezolid-resistant Staphylococcus epidermidis
            in an intensive care unit
  JOURNAL   Antimicrob Resist Infect Control 10 (1), 99 (2021)
   PUBMED   34193293
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 6455)
  AUTHORS   Mellmann,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (28-APR-2021) Inst. Hygiene, University Hospital Muenster,
            Robert-Koch-Str. 41, Muenster 48149, Germany
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Method                   :: HGAP v. SMRT Link V8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 191x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_019330045.1-RS_2024_04_17
            Annotation Date                   :: 04/17/2024 06:56:54
            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)                     :: 2,687
            CDSs (total)                      :: 2,606
            Genes (coding)                    :: 2,525
            CDSs (with protein)               :: 2,525
            Genes (RNA)                       :: 81
            rRNAs                             :: 6, 5, 5 (5S, 16S, 23S)
            complete rRNAs                    :: 6, 5, 5 (5S, 16S, 23S)
            tRNAs                             :: 61
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 81
            CDSs (without protein)            :: 81
            Pseudo Genes (ambiguous residues) :: 0 of 81
            Pseudo Genes (frameshifted)       :: 42 of 81
            Pseudo Genes (incomplete)         :: 44 of 81
            Pseudo Genes (internal stop)      :: 28 of 81
            Pseudo Genes (multiple problems)  :: 24 of 81
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP073880.1.
            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..6455
                     /organism="Staphylococcus epidermidis"
                     /mol_type="genomic DNA"
                     /strain="B1286247"
                     /host="Homo sapiens"
                     /db_xref="taxon:1282"
                     /plasmid="p2B1286247"
                     /geo_loc_name="Germany"
                     /collected_by="Institute of Medical Microbiology and
                     Hygiene, Saarland University, Homburg, Germany"
     gene            complement(join(6034..6455,1..169))
                     /locus_tag="KFV53_RS00005"
                     /old_locus_tag="KFV53_00005"
     CDS             complement(join(6034..6455,1..169))
                     /locus_tag="KFV53_RS00005"
                     /old_locus_tag="KFV53_00005"
                     /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_063279196.1"
                     /translation="MQQPNELSTKNASQFLNISVSSMRLYAKTMESLGYEFKTVENARR
                     FTKYDLQIIYEAMERFKLVGGTMKQSLHYTIVKYEQGQEIADAMPQTTKKNRKVSDELE
                     ALQTNMINEVSNNLKTELVKQYNELSKTIKNSQAQSSEIKYIKADYQTLNDKYNALLDE
                     NKKLKEENKRLHEEMNKLKSKSLWELRKWKKER"
                     /name="hypothetical protein"
     gene            548..1033
                     /locus_tag="KFV53_RS00010"
                     /old_locus_tag="KFV53_00010"
     CDS             548..1033
                     /locus_tag="KFV53_RS00010"
                     /old_locus_tag="KFV53_00010"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_002416577.1"
                     /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="helix-turn-helix domain-containing protein"
                     /protein_id="WP_080464618.1"
                     /translation="MEKLKRGAKPKVDYWLTSEGLTLLQGWARKGLSNKQIAQNMGIHQ
                     ATFYKWQNKYSEIYDTIKKGKEVVDYEVENTLLKCALGFEYEETKVNSDGTTIKYIKHV
                     KPNVTAIIFWLKNRKPNEWLEGYQDDSNINYNIDFSDVSTEDLRNCINENGGTYNEN"
                     /name="helix-turn-helix domain-containing protein"
     gene            1023..1193
                     /locus_tag="KFV53_RS00015"
                     /old_locus_tag="KFV53_00015"
     CDS             1023..1193
                     /locus_tag="KFV53_RS00015"
                     /old_locus_tag="KFV53_00015"
                     /inference="COORDINATES: protein motif:HMM:NF024139.4"
                     /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="helix-turn-helix domain-containing protein"
                     /protein_id="WP_166738018.1"
                     /translation="MRIETYTVNEVAQLLDMNIRTVRKYIKIGEIKASKIGRKYIITSD
                     NVKKFLENKEL"
                     /name="helix-turn-helix domain-containing protein"
     gene            1208..1897
                     /locus_tag="KFV53_RS00020"
                     /old_locus_tag="KFV53_00020"
     CDS             1208..1897
                     /locus_tag="KFV53_RS00020"
                     /old_locus_tag="KFV53_00020"
                     /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_063278518.1"
                     /translation="METVETIKKDIEELNKRAKNTIDIDKKKDYIQGIEDIKTKYKDKY
                     TDEALAETINTYKQDKLKGIYDTLNKFDEQSKELGKNIEERILKLEESSKATLEPKTQY
                     DFERYNFLFSKIQNEMMNLFTDKNNNREWQLDEHIKQAKHDYLYANALLNNEGLLINNI
                     RNNKYISNVERDKLKTYVKMNFEAIKKSNVPKEYKEIEGLKNKLRNNKSASSNKKMMFD
                     FMIGKIS"
                     /name="hypothetical protein"
     gene            2094..2711
                     /locus_tag="KFV53_RS00025"
                     /old_locus_tag="KFV53_00025"
     CDS             2094..2711
                     /locus_tag="KFV53_RS00025"
                     /old_locus_tag="KFV53_00025"
                     /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_063278519.1"
                     /translation="MKKNRGSKITLVIVFIMLGILIYLSFSNLGSEDNHKSHENSDKKR
                     TDVKKNKKQSSSKDKNKSHENNDRSLKNNNEDTSNSHEYYDDPSLDKQVYEDIKESMTL
                     LNSLTSQDIKEYKVNTQIYNQDKKPNVIITVDLKGKEDYSNSELKYRTEHISSNFTGRN
                     EIEGGFNGYFDKLYIKFKEDGIDVGEAKVKFNDSLNPEVQIK"
                     /name="hypothetical protein"
     gene            3028..3672
                     /locus_tag="KFV53_RS00030"
                     /old_locus_tag="KFV53_00030"
     CDS             3028..3672
                     /locus_tag="KFV53_RS00030"
                     /old_locus_tag="KFV53_00030"
                     /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_063278520.1"
                     /translation="MNMKTINKIVSWFLYIGLPLVVVGLFIWQLDNLEKFFKKYPNAID
                     GATLVFVLITTTLSIIISYKSYKSNIKLFKDNKNEQSYKIQQLLKTETKDSIQKLIGFK
                     SNYKRTQINIFDEIKKLDLENELKNMGTKIKDIREKNIESLIPRDFEKIQDDLELISAI
                     EIQVAYYNTLLELIETQENIRDSLPESAKEQIKQHEETLMYEIDKLIERFK"
                     /name="hypothetical protein"
     gene            3951..4181
                     /locus_tag="KFV53_RS00035"
                     /old_locus_tag="KFV53_00035"
     CDS             3951..4181
                     /locus_tag="KFV53_RS00035"
                     /old_locus_tag="KFV53_00035"
                     /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_063278521.1"
                     /translation="MPTATKEHKEVMAERNIEIRDRLLKFWRENYEPKFKLISSEIDVS
                     YTNMRRYVNKHHNFGKKNLDKLEKFLIKQGY"
                     /name="hypothetical protein"
     gene            4305..5798
                     /locus_tag="KFV53_RS00040"
                     /old_locus_tag="KFV53_00040"
     CDS             4305..5798
                     /locus_tag="KFV53_RS00040"
                     /old_locus_tag="KFV53_00040"
                     /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_063278522.1"
                     /translation="MAQDNYYSLVQALKKYFVSSKQKHIEQREDGSYRHIPNGLCDNDL
                     VSHIKGIKTVGIFSGEVFTKFLCFDVDTGKSNKAQARNDVLNLRLSLITDFGLSDNNLE
                     VVDSGNKGYHVYLFFDDLIHVSYLKAFYREVLERNNYKPSDIEFRPTHTQGVKLPLGIH
                     RVTGKQCYFVDPSTPKFKRKPLETIHNIKQINTKLFKEKLQLKDLYELQIEDYTYELCK
                     FMKEDEAKLLNGVLNSLDFSTYEVTHAKENIIEMLETNTLVYPDSRNKYTLLIAIYLKG
                     QGYDVEDTIAKINEIMFYSKRQHKDLIQSSEKHIMNETKKIAKYVYRTNITLGGINRDV
                     YLYADELKDVLALRKTHLMKLYTSMLIHAKRHQPLGEKTFYMAYSVMINYGNNSNRSKL
                     KRYLEELQQLNRISIEENHVIDPVMSEIKGHLFSKTNVYSIKKSFNQNSHHKVLIKADE
                     KTVSTTDILIRAYQNNVINYEYIKDNLTRRQFEKFKQAL"
                     /name="hypothetical protein"
ORIGIN
        1 cctcataaat aatttgcaaa tcgtatttag tgaaacgacg tgcattttct actgttttaa
       61 attcatagcc taagctctcc atagttttag catataaacg catagatgac acagatatgt
      121 ttaaaaattg acttgcattt ttagtgctta attcatttgg ttgttgcata ttttttacac
      181 ctaaagcctt tcatttaggc atttataggt aaaaggcgac aataataata ttaagccttt
      241 aatgccttaa tgatgggtat taacgctacc tataacgcca tattattctc ttattaaata
      301 gctatattcc taattaaaat aatagcatga atatgtgctg atacacacgc gaaacctcac
      361 ttattgtggt ataatagata cagataaagc cttgatataa agctgtttat aaggtttttt
      421 ctattaatgg aaaagtgaag aaaataaaga aaaacgagaa aagatatatt gaattaaata
      481 ttaaattagc cataaggggc aaagaaacaa taaaccccta taaaattcac ttataaggag
      541 gtaacttatg gaaaaattaa aaagaggtgc aaagcctaaa gtagattatt ggcttacctc
      601 tgaagggctg acgttattac aaggttgggc aagaaaagga ttaagcaata aacaaattgc
      661 tcaaaatatg ggcattcatc aagctacatt ttataaatgg caaaataaat atagcgaaat
      721 ttacgacact ataaaaaaag gaaaagaagt cgtggattat gaagtggaaa atacactttt
      781 aaaatgtgca ttaggttttg agtatgaaga aacaaaagta aatagtgatg gtactacgat
      841 aaagtatata aaacacgtta aacctaatgt aacagctata atattttggt tgaagaaccg
      901 taagcctaat gaatggttag aaggttatca ggacgatagt aatattaatt ataatattga
      961 tttttctgat gtaagcactg aggatttacg taactgtatc aatgaaaacg ggggtactta
     1021 taatgagaat tgaaacatat acagtcaatg aagtagccca gttgttagat atgaatatta
     1081 gaacagttag aaaatacata aaaattggag aaattaaagc cagtaaaata ggacgaaaat
     1141 atattatcac ttcagataat gttaaaaagt ttcttgaaaa caaagaacta taaaaggagg
     1201 cataaaaatg gaaacagtag aaacaattaa aaaagatatt gaggaattaa ataagcgtgc
     1261 taaaaatact attgatattg ataagaaaaa agactatata caaggtattg aagatattaa
     1321 aactaaatac aaagataagt atacagatga agcgttagca gaaacgatca atacatataa
     1381 acaagataaa ttaaaaggaa tttacgatac ccttaataaa tttgatgagc aatcaaaaga
     1441 actaggaaaa aatattgaag aaagaatatt aaaactagaa gaaagttcaa aggcaacact
     1501 agaaccgaaa acacaatatg actttgaaag atataatttt ttattcagca aaattcaaaa
     1561 tgaaatgatg aatttgttta cagataaaaa taataataga gagtggcaac tagacgagca
     1621 tataaaacaa gctaagcatg attatttata tgctaatgct ttattaaaca atgagggctt
     1681 gctgattaac aatatacgaa ataataagta catctcaaat gttgaacgag acaaactgaa
     1741 aacttatgta aaaatgaatt ttgaggcgat caaaaaaagc aatgttccta aagagtataa
     1801 agaaatagaa gggttaaaga ataaacttag aaataataaa tcagcttcta gtaataaaaa
     1861 gatgatgttt gattttatga ttgggaaaat tagttaaata agtgctgaga taacgatttc
     1921 tgagcattga aaaacattta acaggggtat tggtttaatg gttgcaacat agagcttaca
     1981 catttgaccc ttgtagtaat tttttgaagt tataattttt tgtattttgg atattaacaa
     2041 acgtgcttta acagataaat cttaattaaa aatgtagatt agcggaggaa aaattgaaaa
     2101 aaaatagagg ttctaaaata acgttggtta tagtatttat aatgttaggt attttaatat
     2161 atttgtcctt ttctaattta ggtagtgaag ataatcataa aagtcatgag aatagcgata
     2221 aaaaaaggac tgatgtaaaa aagaataaaa aacaaagtag cagtaaagat aaaaataaaa
     2281 gtcatgagaa taatgataga agtttaaaaa ataataacga agacacttca aatagtcacg
     2341 aatattacga tgatccaagc ttagataaac aagtatatga agatattaag gaatctatga
     2401 cgctactaaa tagtttaact agtcaagata ttaaagagta taaagttaat actcaaatat
     2461 ataaccaaga taaaaaacct aatgtgatca ttaccgttga tttaaaaggt aaagaagact
     2521 atagcaacag tgaactaaaa tatcgtacag aacacatatc ttcaaacttt actggaagaa
     2581 atgagataga gggcggattt aatggatatt ttgataaatt atatattaaa tttaaagaag
     2641 atggaattga tgtaggtgaa gcaaaagtga aatttaatga ttcgcttaat cctgaagttc
     2701 aaataaaata ataaataaac aaagaaatga tatatattgt ataaggtata catttccact
     2761 acctataata cataattatg taaactaaat aacttccata aacattgtat tgacgggatc
     2821 tatagtgttc gtagttactt gttcaatata cataaaatat acaatcgcat aaccacgctg
     2881 tttatcgtgt tcggtataca cttataaaat taatatttat acattttcgg gtaccgtcat
     2941 gagtgattac aaccaccata aaataatgtg ttaaaaattg taaagtttta tataattgat
     3001 cttgtgaata aaaaaggaat aatgaaaatg aacatgaaaa caataaataa aattgtaagt
     3061 tggtttttgt atatcggtct gccattagtc gttgtgggct tatttatatg gcaattggat
     3121 aatcttgaaa aattctttaa aaaatatcct aatgctatag acggggctac attagtgttt
     3181 gttttaataa caactacttt gagtattatc atttcctata aatcatacaa atcaaatatt
     3241 aagctattta aagataataa aaatgaacaa agttataaga tacaacaatt gttaaaaaca
     3301 gaaacaaaag attctataca aaaactaata ggtttcaaga gtaattataa aaggacacaa
     3361 ataaatattt ttgatgaaat taaaaagcta gatttagaaa atgaattaaa aaacatggga
     3421 acaaagataa aagatattag ggaaaagaat atagaaagtt taataccaag agattttgaa
     3481 aagatacaag atgatttaga actaataagc gcgattgaaa ttcaagttgc ttattataat
     3541 actttacttg aattaattga aacacaagaa aatattagag attcattacc agaatcagca
     3601 aaagaacaaa taaagcaaca tgaagaaaca cttatgtacg aaatagacaa acttatcgaa
     3661 cgttttaaat agttttagga ttatttaata gacaaaaagc atctaacctt aattggtcag
     3721 gtgctttttt gattgcaaac attcaagaac atataaacga gaatgataag atgaatactt
     3781 ttgggcgtta tgtaatcatt gatagaaacg acagtatctt atatgtatgt ttaacaaata
     3841 agaacaaagc atttatttta gagtaataaa ataagtacca caaaaatgtt gttttattat
     3901 tataataaat gtatcataaa aacatattat gtttaaggag gtgtagaaca atgccaacag
     3961 caacaaaaga acataaagaa gtaatggcag agcgtaatat tgaaattcgt gatagattat
     4021 taaagttttg gcgtgagaat tatgagccta agtttaaact tatttcttca gagatagacg
     4081 taagttatac caatatgcgt cgttacgtca acaaacatca taatttcggt aaaaaaaact
     4141 tagataagct tgagaaattc ttaattaaac aaggttatta gaagcattca gataatatat
     4201 ttagcacagt tatataaaaa tattatgctt atgtacaaaa gataacacta tgtactatgt
     4261 attgatatct atcttattat tatattttta caaaggagta tattatggca caagataatt
     4321 attattcact tgtgcaggct cttaagaagt attttgtcag tagtaaacag aaacatattg
     4381 aacaacgaga agatggctct tatagacata tacctaatgg tttatgtgat aatgatttag
     4441 ttagtcatat taaagggatt aaaaccgtag gtatatttag tggagaagta tttactaagt
     4501 ttttatgttt tgatgtagat acaggtaaat ctaataaagc acaggctcgt aatgatgtgt
     4561 taaacctaag actatcttta ataactgatt ttggactatc tgataacaac cttgaagtag
     4621 ttgatagtgg gaataaaggt tatcatgttt atttattttt tgacgatctt atacatgtta
     4681 gttatttaaa agcattttat cgtgaagttt tggaaagaaa taactataaa ccttctgata
     4741 ttgaatttag acctacacat acacaaggtg ttaaattacc tttaggtatt catagagtga
     4801 caggaaagca atgttatttt gttgatcctt ctacacctaa attcaaaaga aaacctttag
     4861 aaactattca taatattaaa cagataaata caaaattatt taaagagaag ttacaactta
     4921 aggacttgta cgagttacaa attgaagatt atacatatga gctatgtaag tttatgaaag
     4981 aagatgaggc taagttactc aatggcgtat taaattcatt agattttagt acctatgaag
     5041 ttactcatgc taaagaaaac attattgaaa tgttagagac taatactctt gtttatcctg
     5101 atagtagaaa caaatataca ttgttgattg ctatatattt aaagggtcaa ggttatgatg
     5161 ttgaagatac gatagcaaaa atcaatgaaa ttatgtttta tagtaaaaga cagcataaag
     5221 atttaataca atcatctgag aaacatatta tgaatgaaac aaaaaaaatt gctaaatatg
     5281 tatatagaac taatatcacg ttaggtggta taaatagaga tgtttattta tatgctgatg
     5341 aacttaaaga tgtattagct ttgagaaaga cacatttaat gaaactctat acatcaatgt
     5401 tgatacatgc taaaaggcat caaccattag gcgaaaaaac gttctatatg gcctactcag
     5461 ttatgattaa ttacggtaac aatagcaata gaagtaagct aaagcgatac cttgaggaac
     5521 tacaacagct aaatagaatt agcattgaag aaaaccatgt aattgatcca gttatgagtg
     5581 agataaaagg tcacttattt agtaaaacca acgtttatag cataaaaaaa agctttaacc
     5641 aaaactccca tcacaaagtt ttaattaaag cagacgaaaa aaccgtcagt actactgata
     5701 tacttataag agcttatcag aataatgtta taaactatga atatattaaa gacaatctta
     5761 ctagacgaca gtttgagaaa ttcaaacaag ctctttagtg agtttgtctt tttttaattg
     5821 aatttacaat ttaaagtata aatgaaagaa catatacatg caataataaa agcatagcag
     5881 taacttatct tttttattta tcttcaattc aaattataac ataatttaga gagccatatt
     5941 cagcaattat atagttttag ttataaaaac cattcataaa atttaaatgc tctatatagc
     6001 tctttaaatg cctttatatt taattccact ttattagcgt tcttttttcc attttcttaa
     6061 ttcccacaag cttttacttt ttagcttatt catttcttca tgaagtcttt tattttcttc
     6121 ttttaacttc ttattttcat caagcaaagc attatattta tcatttaacg tttggtaatc
     6181 agctttaata tattttattt cacttgattg tgcttggcta tttttaatag ttttacttaa
     6241 ttcattgtac tgttttacta attctgtttt tagattatta ctaacttcat tgatcatatt
     6301 agtttgtaat gcttctaatt catcagagac ttttctattt ttctttgtag tttgtggcat
     6361 agcgtcagca atttcttgcc cttgttcata tttaacaatc gtatagtgta gtgattgttt
     6421 cattgttcct ccaacaagtt taaaacgttc cattg
//
