PangenomeCOLN315NCTC8325NewmanUSA300_FPR3757JSNZ04-0298108BA0217611819-97685071193ECT-R 2ED133ED98HO 5096 0412JH1JH9JKD6008JKD6159LGA251M013MRSA252MSHR1132MSSA476MW2Mu3Mu50RF122ST398T0131TCH60TW20USA300_TCH1516VC40

NCBI: 06-JUL-2013

⊟Summary

• organism: Staphylococcus aureus Newman
• locus tag: NWMN_1405 [new locus tag: NWMN_RS07930 ]
• pan locus tag^?: SAUPAN004030000
• symbol: NWMN_1405
• pan gene symbol^?: xerD
• synonym:
• product: integrase/recombinase XerD

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: NWMN_1405 [new locus tag: NWMN_RS07930 ]
• symbol: NWMN_1405
• product: integrase/recombinase XerD
• replicon: chromosome
• strand: -
• coordinates: 1573794..1574681
• length: 888
• essential: unknown other strains

⊟Accession numbers

• Gene ID: 5330833 NCBI
• RefSeq: YP_001332439 NCBI
• BioCyc:
• MicrobesOnline: 3706957 MicrobesOnline

⊟Phenotype

Share your knowledge and add information here. [edit]

⊟DNA sequence

• 1
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  ATGGAAACAATTATTGAAGAATATTTGCGTTTTATACAAATTGAAAAAGGACTAAGTTCT
  AACACAATTGGTGCTTATAGACGTGATTTGAAAAAGTATCAAGATTATATGACTGAACAT
  CATATCTCGCATATTGATTTTATAGATCGACAATTAATTCAAGAGTGTTTGGGGCATTTA
  ATAGACCAAGGGCAATCTGCTAAATCTATTGCGCGATTTATTTCAACAATCCGTAGTTTT
  CATCAATTTGCTATAAGAGAAAAATATGCGGCGAAAGATCCAACGGTATTATTAGATTCA
  CCAAAATATGACAAAAAATTGCCTGACGTTTTAAATGTTGACGAAGTGTTGGCTTTATTA
  GAAACGCCAGATTTAAATAAAATTAATGGATATCGTGATCGTACGATGTTAGAACTTCTG
  TACGCAACGGGAATGCGTGTATCTGAATTGATACATTTAGAGTTAGAAAACGTGAACTTA
  ATAATGGGATTTGTACGCGTATTTGGTAAAGGCGATAAAGAAAGAATTGTACCATTAGGC
  GACGCAGTCATTGAGTACTTAACTACTTATATTGAAACGATTAGACCGCAACTTTTAAAA
  AAGACTGTTACTGAAGTCTTATTTTTAAATATGCATGGTAAACCTTTATCACGACAAGCA
  ATATGGAAAATGATTAAACAAAATGGTGTAAAGGCAAACATTAAAAAGACGTTAACGCCA
  CATACGTTACGCCACTCTTTTGCGACACATTTATTGGAAAATGGCGCAGATTTAAGAGCA
  GTGCAAGAGATGTTAGGTCACTCTGACATATCTACTACCCAACTCTATACACATGTTTCG
  AAATCTCAAATTAGAAAAATGTATAACCAATTTCATCCTAGAGCATAA
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⊟Protein

⊟General

• locus tag: NWMN_1405 [new locus tag: NWMN_RS07930 ]
• symbol: NWMN_1405
• description: integrase/recombinase XerD
• length: 295
• theoretical pI: 9.46286
• theoretical MW: 34132.3
• GRAVY: -0.316271

⊟Function

• TIGRFAM:
  Genetic information processing DNA metabolism DNA replication, recombination, and repair tyrosine recombinase XerD (TIGR02225; HMM-score: 396.5)
  Genetic information processing DNA metabolism DNA replication, recombination, and repair tyrosine recombinase XerC (TIGR02224; HMM-score: 332.4)
  and 2 more
  Genetic information processing DNA metabolism DNA replication, recombination, and repair integron integrase (TIGR02249; HMM-score: 154)
  Genetic information processing Mobile and extrachromosomal element functions Other integron integrase (TIGR02249; HMM-score: 154)
• TheSEED  :
  • Site-specific tyrosine recombinase XerD
• PFAM:
  DNA-mend (CL0382) Phage_integrase; Phage integrase family (PF00589; HMM-score: 184.9)
  and 6 more
  l-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

• domains:
• modifications:
• cofactors:
• effectors:

⊟Localization

• 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: Intracellular
  • Prediction by SwissProt Classification: Cytoplasmic
  • Pathway Prediction: No pathway
  • Intracellular possibility: 1
  • Signal peptide possibility: -1
  • N-terminally Anchored Score: -1
  • Predicted Cleavage Site: No CleavageSite
• 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

• GI: 151221617 NCBI
• RefSeq: YP_001332439 NCBI
• UniProt: A0A0H3K8M6 UniProt

⊟Protein sequence

• METIIEEYLRFIQIEKGLSSNTIGAYRRDLKKYQDYMTEHHISHIDFIDRQLIQECLGHLIDQGQSAKSIARFISTIRSFHQFAIREKYAAKDPTVLLDSPKYDKKLPDVLNVDEVLALLETPDLNKINGYRDRTMLELLYATGMRVSELIHLELENVNLIMGFVRVFGKGDKERIVPLGDAVIEYLTTYIETIRPQLLKKTVTEVLFLNMHGKPLSRQAIWKMIKQNGVKANIKKTLTPHTLRHSFATHLLENGADLRAVQEMLGHSDISTTQLYTHVSKSQIRKMYNQFHPRA

⊟Experimental data

• experimentally validated: data available for COL, NCTC8325
• protein localization: data available for COL
• quantitative data / protein copy number per cell: data available for COL
• interaction partners:

⊟Expression & Regulation

⊟Operon

• MicrobesOnline: NWMN_1405 < NWMN_1406

⊟Regulation

• data available for JSNZ

⊟Transcription pattern

• S.aureus Expression Data Browser: data available for NCTC8325

⊟Protein synthesis (provided by Aureolib)

• Aureolib: no data available

⊟Protein stability

• half-life: no data available

⊟Biological Material

⊟Mutants

⊟Expression vector

⊟lacZ fusion

⊟GFP fusion

⊟two-hybrid system

⊟FLAG-tag construct

⊟Antibody

⊟Other Information

You can add further information about the gene and protein here. [edit]

⊟Literature

⊟References

⊟Relevant publications