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NCBI Reference Sequence: NZ_CTZI01000034.1
FASTA Graphics
LOCUS NZ_CTZI01000034 17738 bp DNA linear CON 11-FEB-2024 DEFINITION Staphylococcus aureus strain HU4, whole genome shotgun sequence. ACCESSION NZ_CTZI01000034 NZ_CTZI01000000 VERSION NZ_CTZI01000034.1 DBLINK BioProject: PRJNA224116 BioSample: SAMEA862618 Assembly: GCF_001228965.1 KEYWORDS WGS; RefSeq. SOURCE Staphylococcus aureus ORGANISM Staphylococcus aureus Bacteria; Bacillati; Bacillota; Bacilli; Bacillales; Staphylococcaceae; Staphylococcus. REFERENCE 1 AUTHORS Informatics,Pathogen. TITLE Direct Submission JOURNAL Submitted (10-MAR-2015) SC, Wellcome Trust Sanger Institute, CB10 1SA, United Kingdom COMMENT REFSEQ INFORMATION: The reference sequence is identical to CTZI01000034.1. 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/ ##Genome-Annotation-Data-START## Annotation Provider :: NCBI RefSeq Annotation Date :: 02/11/2024 07:23:21 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) :: 2,884 CDSs (total) :: 2,821 Genes (coding) :: 2,725 CDSs (with protein) :: 2,725 Genes (RNA) :: 63 rRNAs :: 2, 1, 1 (5S, 16S, 23S) complete rRNAs :: 1, 1, 1 (5S, 16S, 23S) partial rRNAs :: 1 (5S) tRNAs :: 55 ncRNAs :: 4 Pseudo Genes (total) :: 96 CDSs (without protein) :: 96 Pseudo Genes (ambiguous residues) :: 0 of 96 Pseudo Genes (frameshifted) :: 56 of 96 Pseudo Genes (incomplete) :: 34 of 96 Pseudo Genes (internal stop) :: 21 of 96 Pseudo Genes (multiple problems) :: 14 of 96 ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..17738 /organism="Staphylococcus aureus" /mol_type="genomic DNA" /strain="HU4" /serovar="not known" /isolation_source="Tracheal secretion" /host="Homo sapiens" /db_xref="taxon:1280" /geo_loc_name="Turkey:Ankara" /collection_date="2006-06-15" gene complement(286..639) /locus_tag="AK546_RS13525" CDS complement(286..639) /locus_tag="AK546_RS13525" /inference="COORDINATES: similar to AA sequence:RefSeq:YP_500405.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="fluoride efflux transporter FluC" /protein_id="WP_000623471.1" /translation="MISIILVMIGGGFGAIARSAITDYFNHKFTSKLPIATLIVNLVG SFLIGLTIGLSISISWFPAFFVTGFLGGLTTFSTLAKELTLMMTPKFNINLFLNYSLL QFIIGFIACYIGYHI" gene complement(636..1001) /gene="crcB" /locus_tag="AK546_RS13530" CDS complement(636..1001) /gene="crcB" /locus_tag="AK546_RS13530" /inference="COORDINATES: similar to AA sequence:RefSeq:YP_500404.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="fluoride efflux transporter CrcB" /protein_id="WP_001200542.1" /translation="MQYVYIFIGGALGALLRYLISFLNTDGGFPIGTLIANLTGAFVM GLLTALTIAFFSNHPTLKKAITTGFLGALTTFSTFQLELIHMFDHQQFITLLLYAVTS YVFGILLCYVGIKLGGGLS" gene complement(1257..1559) /locus_tag="AK546_RS13535" CDS complement(1257..1559) /locus_tag="AK546_RS13535" /inference="COORDINATES: similar to AA sequence:RefSeq:YP_500403.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="WP_000091445.1" /translation="MSRSKKYFYLSSLMIILSFFFNTNNVFLSGLFNSFIKLILFCSV INSIVLILSIIFADRSIKSLKPDADWIRIASKSLPWIILIVILVHIFSIVRTFGFI" gene 1819..2532 /locus_tag="AK546_RS13540" CDS 1819..2532 /locus_tag="AK546_RS13540" /EC_number="2.2.1.2" /inference="COORDINATES: similar to AA sequence:RefSeq:YP_500402.1" /GO_function="GO:0004801 - transaldolase activity [Evidence IEA]" /GO_process="GO:0006098 - pentose-phosphate shunt [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="transaldolase" /protein_id="WP_001096494.1" /translation="MAKLNVEVFADGADIEEMKAAYKNKQVDGFTTNPSLMAKAGVTD YKAFAEEAVKEIPDASISFEVFADDLETMEKEAAILKQYGENVFVKIPIVNTKGESTI PLIKKLSADNVRLNVTAVYTIEQVKEITEAVTEGVPTYVSVFAGRIADTGVDPLPLMK EAVKVTHSKDGVKLLWASCRELFNVIQADEIGADIITCPADVVKKVNTNLGRDINELS VDTVKGFAKDIQSSGLSIL" gene complement(2971..3606) /gene="sdpA" /locus_tag="AK546_RS13545" CDS complement(2971..3606) /gene="sdpA" /locus_tag="AK546_RS13545" /inference="COORDINATES: similar to AA sequence:RefSeq:YP_500401.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="CPBP family intramembrane glutamic endopeptidase SdpA" /protein_id="WP_001168904.1" /translation="MQKFKDFFYDDLSVTRGNYFLTLMAAFFITIILFIGIVVSEVHL LYSMLIVLVGLILLRLFKINLFSFKKLTLSQVIYIIGGALLIYGLDNLYLYFHDVPAN EQQLEQAIRNTPFYISIFTVTIIPAIVEEIVFRGMIIRVIFRKHLFLGLIVSSLVFAS LHESDTWIGYLPYLYSGLIFGLIYIKTKRLEVVIFMHFLNNLLALLFIIWR" gene 3902..4345 /locus_tag="AK546_RS13550" CDS 3902..4345 /locus_tag="AK546_RS13550" /inference="COORDINATES: similar to AA sequence:RefSeq:YP_500400.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="WP_001030465.1" /translation="MNKASFDKKVKKQLWFLNKKEKQALDQRLSSISDDDSVNLNKPV TFANAYLRQNVFRNKETKSYSMFVTLVVMMFAYVALLGLFLFGLITSLSGVQFFVSPK VDLSTTVVILTIIGAILLMFASIYFIKIVTSYFTKKLLEIKFNSK" gene complement(4332..4775) /locus_tag="AK546_RS13555" CDS complement(4332..4775) /locus_tag="AK546_RS13555" /inference="COORDINATES: similar to AA sequence:RefSeq:YP_500399.1" /GO_process="GO:0030420 - establishment of competence for transformation [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="competence protein ComK" /protein_id="WP_001153742.1" /translation="MQDNSTKYLLYIQTATSNHLETNCVFLHCDYILKVPINKLVSYY AKLHLSSQSVLIETAKNILNINKLVPIYINPKTILFPLKHKRAPIQIYINAHYIVGMT AIENSTLIHFQEGIQLEVDEPFSLVSKKCHESLALKHFIENTISN" gene complement(4888..5358) /gene="sigS" /locus_tag="AK546_RS13560" CDS complement(4888..5358) /gene="sigS" /locus_tag="AK546_RS13560" /inference="COORDINATES: similar to AA sequence:RefSeq:YP_500398.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="RNA polymerase sigma factor SigS" /protein_id="WP_000671052.1" /translation="MKFNDVYNKHHKIIHHLLKKYNISYNYDEYYQLLLIKMWQLSQI YKPSSKQSLSSFLFTRLNFYLIDLFRQQNQLKDVILCENNSPTLTEQPTYFNEHDLRL QDIFKLLNQRERLWLKLYLEGYKQFEIAEIMSLSLSTIKLIKMSVKRKCQHNFN" gene 5557..5781 /locus_tag="AK546_RS13565" CDS 5557..5781 /locus_tag="AK546_RS13565" /inference="COORDINATES: similar to AA sequence:RefSeq:YP_500397.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="WP_000384171.1" /translation="MDYAHLNLEHFFARNDDLDVIRDRADFVMINNFTNEMMYRDGQI EGTIDLNQYYYKNRSNAASFIMMDYKKETK" gene 6057..6911 /locus_tag="AK546_RS13570" CDS 6057..6911 /locus_tag="AK546_RS13570" /inference="COORDINATES: similar to AA sequence:RefSeq:YP_500396.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="N-acetylglucosaminidase" /protein_id="WP_001032833.1" /translation="MNKHKKGSIFGIIGLVVIFAVVSFLFFSMISDQIFFKHVKSDIK IEKLNVTLNDAAKKQINNYTSQQVSNKKNDAWRDASATEIKSAMDSGTFIDNEKQKYQ FLDLSKYQGIDKNRIKRMLVDRPTLLKHTDDFLKAAKDKHVNEVYLISHALLETGAVK SELANGVEIDGKKYYNFYGVGALDKDPIKTGAEYAKKHGWDTPEKAISGGADFIHKHF LSSTDQNTLYSMRWNPKNPGEHQYATDIKWAESNATIIADFYKNMKTEGKYFKYFVYK DDSKHLNK" gene complement(7206..7601) /gene="arsC" /locus_tag="AK546_RS13575" CDS complement(7206..7601) /gene="arsC" /locus_tag="AK546_RS13575" /EC_number="1.20.4.4" /inference="COORDINATES: similar to AA sequence:RefSeq:YP_500395.1" /GO_function="GO:0030612 - arsenate reductase (thioredoxin) activity [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="arsenate reductase (thioredoxin)" /protein_id="WP_000163235.1" /translation="MTKKTIYFICTGNSCRSQMAEGWAKQILADDWNVYSAGIETHGV NPKAIEAMKEVGIDISNHTSDLIDNNIIKNSNLVVTLCSDADVNCPSLPTNVKKEHWG FDDPAGKPWSEFQRVRDEIKIAIENFKSR" gene complement(7619..8911) /gene="arsB" /locus_tag="AK546_RS13580" CDS complement(7619..8911) /gene="arsB" /locus_tag="AK546_RS13580" /inference="COORDINATES: similar to AA sequence:RefSeq:YP_500394.1" /GO_component="GO:0016020 - membrane [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="arsenite efflux transporter membrane subunit ArsB" /protein_id="WP_000989121.1" /translation="MMTTLATLIFLVTLLFVLWQPKGLDIGITALTGAFIAVITGVVS FSDVFEVTGIVWNATLTFVSVILISLILDKVGLFEWSAIHMLHASKGNGLKMFVYIIL LGAIVAAFFANDGAALILTPIVLAMVKNIGFSKRAIFPFIIASGFIADTTSLPLIVSN LVNIISADYFHVGFVRYFSRMIIPNLFSLLASIIVLWLYFRKAIPKTFDDNNIKHPKD AINDLKLFKISWIVLVILLFGYLISEFTKIPVSIFTGIIAFIFLMLARKSNAVNIKQV IKGAPWNIVLFSIGMYIVVFGLRNAGITLILAKILEYISNYGLFSTILGMGFISAFLS SIMNNMPTVLIDAIAIGQSNVHGMLKEGLIYANVIGSDLGPKITPIGSLATLLWLHVL TQKDVKISWGTYFKTGIIITIPVLFITLIGLYLTLIIF" gene complement(8911..9225) /locus_tag="AK546_RS13585" CDS complement(8911..9225) /locus_tag="AK546_RS13585" /inference="COORDINATES: similar to AA sequence:RefSeq:YP_500393.1" /GO_function="GO:0003677 - DNA binding [Evidence IEA]; GO:0003700 - DNA-binding transcription factor activity [Evidence IEA]" /GO_process="GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="ArsR/SmtB family transcription factor" /protein_id="WP_000221179.1" /translation="MTYKELATFLKVLSDSSRLEILDLLSCGELCACDLLAHFQFSQP TLSYHMKALVKTNLVTTRKIGNKHLYQLNHNIFESVINNLSKVHTSNQRCICHNLKTG EC" gene 9748..11250 /locus_tag="AK546_RS13590" CDS 9748..11250 /locus_tag="AK546_RS13590" /inference="COORDINATES: similar to AA sequence:RefSeq:YP_500392.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="FAD/NAD(P)-binding protein" /protein_id="WP_001261677.1" /translation="MRVAIIGMGTAGVSVLRELVKHPKFNQLDIDLYDDKVNMGQGVP FQNDSSELLINMPSKKMSLNLDDETEFWKWYKQQTDFNFDEPAYLPRFVFGHYMKSYL SMFTKKYPNISTNYNKVQEIYTNSNIDETNLTYYICTTNSGQSWQAYDYVFLTCGTFA YHDPYNLKGKKGYIATPYPTYNTLDEVNELDDIAIIGTGLASLDVVRYVAAHHPKLPI TMTSRSAHLPSVRGTMIDVTFKYLTKDKLNDIKKHHFGNAPLDTLVSLFLKECADYDI DFKKLVHRRTGNHIADLKYDLARPTEMGIFQSMIEHLKENLNWIWNSLSIEDQHQFNQ KYSKMIQLNSNPMPPRTAELIIELIENKSLILKKDLEDVKHDGKLYYFSYKNQESVDI YNVVINATGAKSHLNELDQDDQLIRNLENRQIVQAHPMGGIQIIPETNQVISPRFGTL TNMIAIGQMTNGVNKLRNGVKMIVEQVAHTVSQLYDALESNEQQQRSDNQ" regulatory 11469..11604 /regulatory_class="riboswitch" /inference="COORDINATES: nucleotide motif:Rfam:14.4:RF00050" /inference="COORDINATES: profile:INFERNAL:1.1.4" /note="FMN riboswitch; Derived by automated computational analysis using gene prediction method: cmsearch." /bound_moiety="flavin mononucleotide" /db_xref="RFAM:RF00050" gene 11731..12774 /gene="ribD" /locus_tag="AK546_RS13595" CDS 11731..12774 /gene="ribD" /locus_tag="AK546_RS13595" /EC_number="1.1.1.193" /EC_number="3.5.4.26" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_015581873.1" /GO_function="GO:0008703 - 5-amino-6-(5-phosphoribosylamino)uracil reductase activity [Evidence IEA]; GO:0008835 - diaminohydroxyphosphoribosylaminopyrimidine deaminase activity [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase RibD" /protein_id="WP_000077344.1" /translation="MSQFMDYAIQLANMVQGQTGVNPPVGAVVVKEGRIVGIGAHLRK GDKHAEVQALDMAQQNAEGATIYITLEPCSHFGSTPPCVNKIIDCKIAKVVYATKDNS LDTHGDETLRAHGIEVECVDDERASQLYQDFFKAKAKQLPQITVKVSASLDGKQANDN GQSQWITNKEVKQDVYKLRHRHDAVLTGRRTVELDDPQYTTRIQDGKNPIKVILSKSG NIHFNQQIYQDESTPIWIYTENPNLTTNQTHIEIIYLKSCDLTTILHNLYKRGVGTLL VEAGPTTTSEFLQSNYIDEFILYYAPKLIGGSGNYQFYQTNDVIEIPDANQFEIVHSE LLNQNVKLTLRKK" gene 12781..13413 /locus_tag="AK546_RS13600" CDS 12781..13413 /locus_tag="AK546_RS13600" /EC_number="2.5.1.9" /inference="COORDINATES: similar to AA sequence:RefSeq:YP_500390.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="riboflavin synthase" /protein_id="WP_000493892.1" /translation="MFTGIVEEIGVVKSVQIRQSVRTIEIEAHKITADMHIGDSISVN GACLTVIDFNQTSFTVQVIKGTENKTYLADVKRQSEVNLERAMSGNGRFGGHFVLGHV DELGTVSKINETANAKIITIQCSQHINNQLVKQGSITVDGVSLTVFDKHDNSFDIHLI PETRRSTILSSKKLGDKVHLETDVLFKYVENILNKDKDQLSVDKLRAFGF" gene 13424..14605 /locus_tag="AK546_RS13605" CDS 13424..14605 /locus_tag="AK546_RS13605" /inference="COORDINATES: similar to AA sequence:RefSeq:YP_500389.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="bifunctional 3,4-dihydroxy-2-butanone-4-phosphate synthase/GTP cyclohydrolase II" /protein_id="WP_001159024.1" /translation="MQFDNIDSALMALKNGEPIIVVDDENRENEGDLVAVTEWMNDNT INFMAKEARGLICAPVSKDIAQRLDLVQMVDDNSDIFGTQFTVSIDHVDTTTGISAYE RTLTAKNLIDPSSEAKDFNRPGHLFPLVAQDKGVLARNGHTEAAVDLAKLTGAKPAGV ICEIMNDDGTMAKGQDLQKFKEKHQLKMITIDDLIEYRKKLEPEIEFKAKVKMPTDFG TFDMYGFKATYTDEEIVVLTKGAIRQHENVRLHSACLTGDIFHSQRCDCGAQLESSMK YINEHGGMIIYLPQEGRGIGLLNKLRAYELIEQGYDTVTANLALGFDEDLRDYHIAAQ ILKYFNIEHINLLSNNPSKFEGLKLYGIDIAERIEVIVPETVHNHDYMETKKIKMGHL I" gene 14618..15082 /gene="ribE" /locus_tag="AK546_RS13610" CDS 14618..15082 /gene="ribE" /locus_tag="AK546_RS13610" /EC_number="2.5.1.78" /inference="COORDINATES: similar to AA sequence:RefSeq:YP_500388.1" /GO_component="GO:0009349 - riboflavin synthase complex [Evidence IEA]" /GO_function="GO:0000906 - 6,7-dimethyl-8-ribityllumazine synthase activity [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="6,7-dimethyl-8-ribityllumazine synthase" /protein_id="WP_001008551.1" /translation="MNFEGKLIGKDLKVAIVVSRFNDFITGRLLEGAKDTLIRHDVNE DNIDVAFVPGAFEIPLVAKKLASSGNYDAVITLGCVIRGATSHYDYVCNEVAKGVSKV NDQTNVPVIFGILTTESIEQAVERAGTKAGNKGAEAAVSAIEMANLLKSIKA" gene complement(15204..16205) /locus_tag="AK546_RS13615" CDS complement(15204..16205) /locus_tag="AK546_RS13615" /inference="COORDINATES: similar to AA sequence:RefSeq:YP_500387.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="proline dehydrogenase family protein" /protein_id="WP_001196354.1" /translation="MALLKNFFIGLSNNSFLNNAAKKVGPRLGANKVVAGNTIPELIN TIEYLNDKNIAVTVDNLGEFVGTVEESNHAKEQILTIMDALHQHGVKAHMSVKLSQLG AEFDLELAYQNLREILLKANTYNNMHINIDTEKYASLQQIVQVLDRLKGEFRNVGTVI QAYLYDSHELVDKYQDLRLRLVKGAYKENESIAFQSKEDVDANYIKIIEQRLLNARNF TSIATHDHRIINHVKQFMKENHIEKDRMEFQMLYGFRSELAEEIANEGYNFTIYVPYG DDWFAYFMRRLAERPQNLSLAVKEFVKPAGLKRVGIIAALGATVMLGLSTIKKLCRK" gene 16317..16436 /locus_tag="AK546_RS13620" CDS 16317..16436 /locus_tag="AK546_RS13620" /inference="COORDINATES: similar to AA sequence:RefSeq:YP_500386.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="WP_001790712.1" /translation="MMLISFIYNNMDNNNTINRNLHSEFAIIMLLKINEKGAV" gene 16439..17266 /locus_tag="AK546_RS13625" CDS 16439..17266 /locus_tag="AK546_RS13625" /inference="COORDINATES: similar to AA sequence:RefSeq:YP_500385.1" /GO_function="GO:0016787 - hydrolase activity [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="alpha/beta fold hydrolase" /protein_id="WP_000266096.1" /translation="MWKWEAENDAKGVVVIAHNILEHTGRYAYVITMLRRNGYHVIMG DLPGQGQTSRANKGQIENFQTYHESLLDWLKIANEYKIPTYVLGVGLGGLILLNLLEK VELPIEGMMLISPMLELQKNGKNRKDKLVSNIGKISKDTRFNVGVEPKDLTRNLEIVE ETVNDGLMLKKATYHWYNTINETMKDTMAHIHDIQPMPTLLMYGTKDLIVDTRAIDEF KEKYQTPELYFKAWQGFYHEVHNEPERDEVMRYILTFLNNSVNTMGFIVEDDEIVEI" CONTIG join(CTZI01000034.1:1..17738) //
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