LOCUS       NZ_CP073874             6601 bp    DNA     linear   CON 17-APR-2024
DEFINITION  Staphylococcus epidermidis strain B1282731 plasmid p3B1282731.
ACCESSION   NZ_CP073874
VERSION     NZ_CP073874.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN18699890
            Assembly: GCF_019329785.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus epidermidis
  ORGANISM  Staphylococcus epidermidis
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 6601)
  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 6601)
  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                   :: 407x
            Sequencing Technology             :: PacBio Sequel
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_019329785.1-RS_2024_04_17
            Annotation Date                   :: 04/17/2024 07:05:13
            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)                     :: 2,685
            CDSs (total)                      :: 2,604
            Genes (coding)                    :: 2,526
            CDSs (with protein)               :: 2,526
            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)              :: 78
            CDSs (without protein)            :: 78
            Pseudo Genes (ambiguous residues) :: 0 of 78
            Pseudo Genes (frameshifted)       :: 41 of 78
            Pseudo Genes (incomplete)         :: 43 of 78
            Pseudo Genes (internal stop)      :: 27 of 78
            Pseudo Genes (multiple problems)  :: 24 of 78
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP073874.1.
            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/
FEATURES             Location/Qualifiers
     source          1..6601
                     /organism="Staphylococcus epidermidis"
                     /mol_type="genomic DNA"
                     /strain="B1282731"
                     /host="Homo sapiens"
                     /db_xref="taxon:1282"
                     /plasmid="p3B1282731"
                     /geo_loc_name="Germany"
                     /collected_by="Institute of Medical Microbiology and
                     Hygiene, Saarland University, Homburg, Germany"
     gene            complement(512..997)
                     /locus_tag="KFV34_RS13300"
                     /old_locus_tag="KFV34_13310"
     CDS             complement(512..997)
                     /locus_tag="KFV34_RS13300"
                     /old_locus_tag="KFV34_13310"
                     /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            1376..1966
                     /locus_tag="KFV34_RS13305"
                     /old_locus_tag="KFV34_13315"
     CDS             1376..1966
                     /locus_tag="KFV34_RS13305"
                     /old_locus_tag="KFV34_13315"
                     /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            complement(2202..3695)
                     /locus_tag="KFV34_RS13310"
                     /old_locus_tag="KFV34_13320"
     CDS             complement(2202..3695)
                     /locus_tag="KFV34_RS13310"
                     /old_locus_tag="KFV34_13320"
                     /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"
     gene            complement(3819..4049)
                     /locus_tag="KFV34_RS13315"
                     /old_locus_tag="KFV34_13325"
     CDS             complement(3819..4049)
                     /locus_tag="KFV34_RS13315"
                     /old_locus_tag="KFV34_13325"
                     /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            complement(4328..4972)
                     /locus_tag="KFV34_RS13320"
                     /old_locus_tag="KFV34_13330"
     CDS             complement(4328..4972)
                     /locus_tag="KFV34_RS13320"
                     /old_locus_tag="KFV34_13330"
                     /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            complement(5289..5906)
                     /locus_tag="KFV34_RS13325"
                     /old_locus_tag="KFV34_13335"
     CDS             complement(5289..5906)
                     /locus_tag="KFV34_RS13325"
                     /old_locus_tag="KFV34_13335"
                     /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            complement(6103..>6601)
                     /locus_tag="KFV34_RS13330"
                     /old_locus_tag="KFV34_13340"
     CDS             complement(6103..>6601)
                     /locus_tag="KFV34_RS13330"
                     /old_locus_tag="KFV34_13340"
                     /inference="COORDINATES: ab initio prediction:GeneMarkS-2+"
                     /note="Derived by automated computational analysis using
                     gene prediction method: GeneMarkS-2+."
                     /codon_start=2
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_219045327.1"
                     /translation="EFTIPLINLMSNQKRKKNIEERILKLEESSKATLEPKTQYDFERY
                     NFLFSKIQNEMMNLFTDKNNNREWQLDEHIKQAKHDYLYANALLNNEGLLINNIRNNKY
                     ISNVERDKLKTYVKMNFEAIKKSNVPKEYKEIEGLKNKLRNNKSASSNKKMMFDFMIGK
                     IS"
                     /name="hypothetical protein"
ORIGIN
        1 ataaaaaatt atatctttca aagtcatatt gtgttttcgg ttctagtgtt ttgcctttga
       61 actttcttct agttttaata ttcttcttca atattttttt cctagttctt ttgattgctc
      121 atcaaattta ttaagggtat cgtaaattcc ttttaattta tcttgtttat atgtattgat
      181 cgtttctgct aacgcttcat ctgtatactt atctttgtat ttagttttaa tatcttcaat
      241 accttgtata tagtcttttt cttatcatta tcaatagtat ttttagcacg cttatttaat
      301 tcctcaatat ctttttaatt gtttctactg tttccatttt tatgcctcct tttatagttc
      361 tttgttttca agaaaacttt ttaacattat ctgaagtgat aatatatttt cgtcctattt
      421 tactggcttt aatttctcca atttttatgt attttctaac tgttctaata ttcaatctaa
      481 caactgggct acttcattga ctgtatatgt ttcaattctc attataagta cccccgtttt
      541 cattgataca gttacgtaaa tcctcagtgc ttacatcaga aaaatcaata ttataattaa
      601 tattactatc gtcctgataa ccttctaacc attcattagg cttacggttc ttcaaccaaa
      661 atattatagc tgttacatta ggtttaacgt gttttatata ctttatcgta gtaccatcac
      721 tatttacttt tgtttcttca tactcaaaac ctaatgcaca ttttaaaagt gtattttcca
      781 cttcataatc cacgacttct tttccttttt ttatagtgtc gtaaatttcg ctatatttat
      841 tttgccattt ataaaatgta gcttgatgaa tgcccatatt ttgagcaatt tgtttattgc
      901 ttaatccttt tcttgcccaa ccttgtaata acgtcagccc ttcagaggta agccaataat
      961 ctactttagg ctttgcacct ctttttaatt tttccataag ttacctcctt ataagtgaat
     1021 tttatagggg tttattgttt ctttgcccct tatggctaat ttaatattta attcaatata
     1081 tcttttctcg tttttcttta ttttcttcac ttttccatta atagaaaaaa ccttataaac
     1141 agctttatat caaggcttta tctgtatcta ttataccaca ataagtgagg tttcgcgtgt
     1201 gtatcagcac atattcatgc tattatttta attaggaata tagctattta ataagagaat
     1261 aatatggcgt tataggtagc gttaataccc atcattaagg cattaaaggc ttaatattat
     1321 tattgtcgcc ttttacctat aaatgcctaa atgaaaggct ttaggtgtaa aaaatatgca
     1381 acaaccaaat gaattaagca ctaaaaatgc aagtcaattt ttaaacatat ctgtgtcatc
     1441 tatgcgttta tatgctaaaa ctatggagag cttaggctat gaatttaaaa cagtagaaaa
     1501 tgcacgtcgt ttcactaaat acgatttgca aattatttat gaggcaatgg aacgttttaa
     1561 acttgttgga ggaacaatga aacaatcact acactatacg attgttaaat atgaacaagg
     1621 gcaagaaatt gctgacgcta tgccacaaac tacaaagaaa aatagaaaag tctctgatga
     1681 attagaagca ttacaaacta atatgatcaa tgaagttagt aataatctaa aaacagaatt
     1741 agtaaaacag tacaatgaat taagtaaaac tattaaaaat agccaagcac aatcaagtga
     1801 aataaaatat attaaagctg attaccaaac gttaaatgat aaatataatg ctttgcttga
     1861 tgaaaataag aagttaaaag aagaaaataa aagacttcat gaagaaatga ataagctaaa
     1921 aagtaaaagc ttgtgggaat taagaaaatg gaaaaaagaa cgctaataaa gtggaattaa
     1981 atataaaggc atttaaagag ctatatagag catttaaatt ttatgaatgg tttttataac
     2041 taaaactata taattgctga atatggctct ctaaattatg ttataatttg aattgaagat
     2101 aaataaaaaa gataagttac tgctatgctt ttattattgc atgtatatgt tctttcattt
     2161 atactttaaa ttgtaaattc aattaaaaaa agacaaactc actaaagagc ttgtttgaat
     2221 ttctcaaact gtcgtctagt aagattgtct ttaatatatt catagtttat aacattattc
     2281 tgataagctc ttataagtat atcagtagta ctgacggttt tttcgtctgc tttaattaaa
     2341 actttgtgat gggagttttg gttaaagctt ttttttatgc tataaacgtt ggttttacta
     2401 aataagtgac cttttatctc actcataact ggatcaatta catggttttc ttcaatgcta
     2461 attctattta gctgttgtag ttcctcaagg tatcgcttta gcttacttct attgctattg
     2521 ttaccgtaat taatcataac tgagtaggcc atatagaacg ttttttcgcc taatggttga
     2581 tgccttttag catgtatcaa cattgatgta tagagtttca ttaaatgtgt ctttctcaaa
     2641 gctaatacat ctttaagttc atcagcatat aaataaacat ctctatttat accacctaac
     2701 gtgatattag ttctatatac atatttagca attttttttg tttcattcat aatatgtttc
     2761 tcagatgatt gtattaaatc tttatgctgt cttttactat aaaacataat ttcattgatt
     2821 tttgctatcg tatcttcaac atcataacct tgacccttta aatatatagc aatcaacaat
     2881 gtatatttgt ttctactatc aggataaaca agagtattag tctctaacat ttcaataatg
     2941 ttttctttag catgagtaac ttcataggta ctaaaatcta atgaatttaa tacgccattg
     3001 agtaacttag cctcatcttc tttcataaac ttacatagct catatgtata atcttcaatt
     3061 tgtaactcgt acaagtcctt aagttgtaac ttctctttaa ataattttgt atttatctgt
     3121 ttaatattat gaatagtttc taaaggtttt cttttgaatt taggtgtaga aggatcaaca
     3181 aaataacatt gctttcctgt cactctatga atacctaaag gtaatttaac accttgtgta
     3241 tgtgtaggtc taaattcaat atcagaaggt ttatagttat ttctttccaa aacttcacga
     3301 taaaatgctt ttaaataact aacatgtata agatcgtcaa aaaataaata aacatgataa
     3361 cctttattcc cactatcaac tacttcaagg ttgttatcag atagtccaaa atcagttatt
     3421 aaagatagtc ttaggtttaa cacatcatta cgagcctgtg ctttattaga tttacctgta
     3481 tctacatcaa aacataaaaa cttagtaaat acttctccac taaatatacc tacggtttta
     3541 atccctttaa tatgactaac taaatcatta tcacataaac cattaggtat atgtctataa
     3601 gagccatctt ctcgttgttc aatatgtttc tgtttactac tgacaaaata cttcttaaga
     3661 gcctgcacaa gtgaataata attatcttgt gccataatat actcctttgt aaaaatataa
     3721 taataagata gatatcaata catagtacat agtgttatct tttgtacata agcataatat
     3781 ttttatataa ctgtgctaaa tatattatct gaatgcttct aataaccttg tttaattaag
     3841 aatttctcaa gcttatctaa gtttttttta ccgaaattat gatgtttgtt gacgtaacga
     3901 cgcatattgg tataacttac gtctatctct gaagaaataa gtttaaactt aggctcataa
     3961 ttctcacgcc aaaactttaa taatctatca cgaatttcaa tattacgctc tgccattact
     4021 tctttatgtt cttttgttgc tgttggcatt gttctacacc tccttaaaca taatatgttt
     4081 ttatgataca tttattataa taataaaaca acatttttgt ggtacttatt ttattactct
     4141 aaaataaatg ctttgttctt atttgttaaa catacatata agatactgtc gtttctatca
     4201 atgattacat aacgcccaaa agtattcatc ttatcattct cgtttatatg ttcttgaatg
     4261 tttgcaatca aaaaagcacc tgaccaatta aggttagatg ctttttgtct attaaataat
     4321 cctaaaacta tttaaaacgt tcgataagtt tgtctatttc gtacataagt gtttcttcat
     4381 gttgctttat ttgttctttt gctgattctg gtaatgaatc tctaatattt tcttgtgttt
     4441 caattaattc aagtaaagta ttataataag caacttgaat ttcaatcgcg cttattagtt
     4501 ctaaatcatc ttgtatcttt tcaaaatctc ttggtattaa actttctata ttcttttccc
     4561 taatatcttt tatctttgtt cccatgtttt ttaattcatt ttctaaatct agctttttaa
     4621 tttcatcaaa aatatttatt tgtgtccttt tataattact cttgaaacct attagttttt
     4681 gtatagaatc ttttgtttct gtttttaaca attgttgtat cttataactt tgttcatttt
     4741 tattatcttt aaatagctta atatttgatt tgtatgattt ataggaaatg ataatactca
     4801 aagtagttgt tattaaaaca aacactaatg tagccccgtc tatagcatta ggatattttt
     4861 taaagaattt ttcaagatta tccaattgcc atataaataa gcccacaacg actaatggca
     4921 gaccgatata caaaaaccaa cttacaattt tatttattgt tttcatgttc attttcatta
     4981 ttcctttttt attcacaaga tcaattatat aaaactttac aatttttaac acattatttt
     5041 atggtggttg taatcactca tgacggtacc cgaaaatgta taaatattaa ttttataagt
     5101 gtataccgaa cacgataaac agcgtggtta tgcgattgta tattttatgt atattgaaca
     5161 agtaactacg aacactatag atcccgtcaa tacaatgttt atggaagtta tttagtttac
     5221 ataattatgt attataggta gtggaaatgt ataccttata caatatatat catttctttg
     5281 tttatttatt attttatttg aacttcagga ttaagcgaat cattaaattt cacttttgct
     5341 tcacctacat caattccatc ttctttaaat ttaatatata atttatcaaa atatccatta
     5401 aatccgccct ctatctcatt tcttccagta aagtttgaag atatgtgttc tgtacgatat
     5461 tttagttcac tgttgctata gtcttcttta ccttttaaat caacggtaat gatcacatta
     5521 ggttttttat cttggttata tatttgagta ttaactttat actctttaat atcttgacta
     5581 gttaaactat ttagtagcgt catagattcc ttaatatctt catatacttg tttatctaag
     5641 cttggatcat cgtaatattc gtgactattt gaagtgtctt cgttattatt ttttaaactt
     5701 ctatcattat tctcatgact tttattttta tctttactgc tactttgttt tttattcttt
     5761 tttacatcag tccttttttt atcgctattc tcatgacttt tatgattatc ttcactacct
     5821 aaattagaaa aggacaaata tattaaaata cctaacatta taaatactat aaccaacgtt
     5881 attttagaac ctctattttt tttcaatttt tcctccgcta atctacattt ttaattaaga
     5941 tttatctgtt aaagcacgtt tgttaatatc caaaatacaa aaaattataa cttcaaaaaa
     6001 ttactacaag ggtcaaatgt gtaagctcta tgttgcaacc attaaaccaa tacccctgtt
     6061 aaatgttttt caatgctcag aaatcgttat ctcagcactt atttaactaa ttttcccaat
     6121 cataaaatca aacatcatct ttttattact agaagctgat ttattatttc taagtttatt
     6181 ctttaaccct tctatttctt tatactcttt aggaacattg ctttttttga tcgcctcaaa
     6241 attcattttt acataagttt tcagtttgtc tcgttcaaca tttgagatgt acttattatt
     6301 tcgtatattg ttaatcagca agccctcatt gtttaataaa gcattagcat ataaataatc
     6361 atgcttagct tgttttatat gctcgtctag ttgccactct ctattattat ttttatctgt
     6421 aaacaaattc atcatttcat tttgaatttt gctgaataaa aaattatatc tttcaaagtc
     6481 atattgtgtt ttcggttcta gtgttgcctt tgaactttct tctagtttta atattctttc
     6541 ttcaatattt tttttcctct tttgattgct catcaaattt attaagggta tcgtaaattc
     6601 c
//
