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FunGene: 08-OCT-2024
⊟Summary[edit | edit source]
- organism: Staphylococcus aureus JSNZ
- locus tag: JSNZ_001485
- pan locus tag?: SAUPAN004030000
- symbol: xerD
- pan gene symbol?: xerD
- synonym:
- product: site-specific tyrosine recombinase XerD
⊟Genome View[edit | edit source]
⊟Gene[edit | edit source]
⊟General[edit | edit source]
- type: CDS
- locus tag: JSNZ_001485
- symbol: xerD
- product: site-specific tyrosine recombinase XerD
- replicon: chromosome
- strand: -
- coordinates: 1529028..1529915
- length: 888
- essential: unknown other strains
⊟Accession numbers[edit | edit source]
- Gene ID:
- RefSeq:
- BioCyc:
- MicrobesOnline:
⊟Phenotype[edit | edit source]
Share your knowledge and add information here. [edit]
⊟DNA sequence[edit | edit source]
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841ATGGAAACAATTATTGAAGAATATTTGCGTTTTATACAAATTGAAAAAGGACTAAGTTCT
AACACAATTGGTGCTTATAGACGTGATTTGAAAAAGTATCAAGATTATATGACTGAACAT
CATATCTCGCATATTGATTTTATAGATCGACAATTAATTCAAGAGTGTTTGGGGCATTTA
ATAGACCAAGGGCAATCTGCTAAATCTATTGCGCGATTTATTTCAACAATCCGTAGTTTT
CATCAATTTGCTATAAGAGAAAAATATGCGGCGAAAGATCCAACGGTATTATTAGATTCA
CCAAAATATGACAAAAAATTGCCTGACGTTTTAAATGTTGACGAAGTGTTGGCTTTATTA
GAAACGCCGGATCTAAATAAAATTAATGGTTATCGTGATCGTACGATGTTAGAACTTCTG
TACGCAACGGGAATGCGTGTATCTGAATTGATACATTTAGAGTTAGAAAACGTGAACTTA
ATAATGGGATTTGTACGCGTATTTGGTAAAGGCGATAAAGAAAGAATTGTACCATTAGGC
GACGCAGTCATTGAGTACTTAACTACTTATATTGAAACGATTAGACCGCAACTTTTAAAA
AAGACTGTTACCGAAGTCTTATTTTTAAATATGCATGGTAAACCTTTATCGCGACAAGCA
ATATGGAAAATGATTAAACAAAATGGTGTAAAGGCAAACATTAAAAAGACGTTAACGCCA
CATACGTTACGCCACTCTTTTGCGACACATTTATTGGAAAATGGCGCAGATTTAAGAGCA
GTGCAAGAGATGTTAGGTCACTCTGACATATCTACTACGCAACTCTATACACATGTTTCA
AAATCTCAAATTAGAAAAATGTATAACCAATTTCATCCTAGAGCATAA60
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⊟Protein[edit | edit source]
⊟General[edit | edit source]
- locus tag: JSNZ_001485
- symbol: XerD
- description: site-specific tyrosine recombinase XerD
- length: 295
- theoretical pI: 9.46286
- theoretical MW: 34132.3
- GRAVY: -0.316271
⊟Function[edit | edit source]
- TIGRFAM: DNA metabolism DNA replication, recombination, and repair tyrosine recombinase XerD (TIGR02225; HMM-score: 396.5)DNA metabolism DNA replication, recombination, and repair tyrosine recombinase XerC (TIGR02224; HMM-score: 332.4)and 2 moreDNA metabolism DNA replication, recombination, and repair integron integrase (TIGR02249; HMM-score: 154)Mobile and extrachromosomal element functions Other integron integrase (TIGR02249; HMM-score: 154)
- TheSEED: data available for COL, N315, NCTC8325, Newman, USA300_FPR3757
- PFAM: DNA-mend (CL0382) Phage_integrase; Phage integrase family (PF00589; HMM-score: 184.9)and 6 morel-integrase_N (CL0469) Phage_int_SAM_1; Phage integrase, N-terminal SAM-like domain (PF02899; HMM-score: 97.6)Phage_int_SAM_5; Phage integrase SAM-like domain (PF13102; HMM-score: 27.6)Phage_int_SAM_4; Phage integrase, N-terminal SAM-like domain (PF13495; HMM-score: 15.1)HTH (CL0123) Linker_histone; linker histone H1 and H5 family (PF00538; HMM-score: 13.5)PepSY (CL0320) DUF3192; Protein of unknown function (DUF3192) (PF11399; HMM-score: 12.3)no clan defined UPF0154; Uncharacterised protein family (UPF0154) (PF03672; HMM-score: 12.2)
⊟Structure, modifications & cofactors[edit | edit source]
- domains:
- modifications:
- cofactors:
- effectors:
⊟Localization[edit | edit source]
- PSORTb: Cytoplasmic
- Cytoplasmic Score: 9.97
- Cytoplasmic Membrane Score: 0
- Cellwall Score: 0.01
- Extracellular Score: 0.02
- Internal Helices: 0
- DeepLocPro: Cytoplasmic
- Cytoplasmic Score: 0.9975
- Cytoplasmic Membrane Score: 0.0018
- Cell wall & surface Score: 0.0001
- Extracellular Score: 0.0006
- LocateP:
- SignalP: no predicted signal peptide
- SP(Sec/SPI): 0.00332
- TAT(Tat/SPI): 0.000702
- LIPO(Sec/SPII): 0.000467
- predicted transmembrane helices (TMHMM): 0
⊟Accession numbers[edit | edit source]
- GI:
- RefSeq:
- UniProt:
⊟Protein sequence[edit | edit source]
- METIIEEYLRFIQIEKGLSSNTIGAYRRDLKKYQDYMTEHHISHIDFIDRQLIQECLGHLIDQGQSAKSIARFISTIRSFHQFAIREKYAAKDPTVLLDSPKYDKKLPDVLNVDEVLALLETPDLNKINGYRDRTMLELLYATGMRVSELIHLELENVNLIMGFVRVFGKGDKERIVPLGDAVIEYLTTYIETIRPQLLKKTVTEVLFLNMHGKPLSRQAIWKMIKQNGVKANIKKTLTPHTLRHSFATHLLENGADLRAVQEMLGHSDISTTQLYTHVSKSQIRKMYNQFHPRA
⊟Experimental data[edit | edit source]
⊟Expression & Regulation[edit | edit source]
⊟Operon[edit | edit source]
- Operon-mapper [1] : xerD < JSNZ_001486
⊟Regulation[edit | edit source]
⊟Transcription pattern[edit | edit source]
- S.aureus Expression Data Browser: data available for NCTC8325
⊟Protein synthesis (provided by Aureolib)[edit | edit source]
- Aureolib: no data available
⊟Protein stability[edit | edit source]
- half-life: no data available
⊟Biological Material[edit | edit source]
⊟Mutants[edit | edit source]
⊟Expression vector[edit | edit source]
⊟lacZ fusion[edit | edit source]
⊟GFP fusion[edit | edit source]
⊟two-hybrid system[edit | edit source]
⊟FLAG-tag construct[edit | edit source]
⊟Antibody[edit | edit source]
⊟Other Information[edit | edit source]
You can add further information about the gene and protein here. [edit]
⊟Literature[edit | edit source]
⊟References[edit | edit source]
- ↑ Blanca Taboada, Karel Estrada, Ricardo Ciria, Enrique Merino
Operon-mapper: a web server for precise operon identification in bacterial and archaeal genomes.
Bioinformatics: 2018, 34(23);4118-4120
[PubMed:29931111] [WorldCat.org] [DOI] (I p) - ↑ Hannes Wolfgramm, Larissa Milena Busch, Jöran Tebben, Henry Mehlan, Lisa Hagenau, Thomas Sura, Tilly Hoffmüller, Elisa Bludau, Manuela Gesell Salazar, Alexander Reder, Stephan Michalik, Leif Steil, Kristin Surmann, Ulrike Mäder, Silva Holtfreter, Uwe Völker
Integrated genomic and proteomic analysis of the mouse-adapted Staphylococcus aureus strain JSNZ.
Curr Res Microb Sci: 2025, 9;100489
[PubMed:41146725] [WorldCat.org] [DOI] (I e)