NCBI: 03-AUG-2016

⊟Summary[edit | edit source]

organism: Staphylococcus aureus NCTC8325

locus tag: SAOUHSC_02406

pan locus tag^?: SAUPAN005507000

symbol: SAOUHSC_02406

pan gene symbol^?: cdaR

synonym: ybbR
product: hypothetical protein

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

type: CDS
locus tag: SAOUHSC_02406
symbol: SAOUHSC_02406
product: hypothetical protein
replicon: chromosome
strand: -
coordinates: 2234218..2235150
length: 933
essential: no DEG other strains

⊟Accession numbers[edit | edit source]

Gene ID: 3919621 NCBI
RefSeq: YP_500882 NCBI
BioCyc: G1I0R-2272 BioCyc
MicrobesOnline: 1290843 MicrobesOnline

⊟Phenotype[edit | edit source]

Share your knowledge and add information here. [edit]

⊟DNA sequence[edit | edit source]

1
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121
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481
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901
ATGCTAGAAAGTAAATGGGGCTTGAGATTTATTGCCTTTCTTTTGGCATTGTTTTTCTTT
TTATCTGTTAACAATGTTTTTGGAAATATCTTTAACACTGGTAATCTTGGTCAAAAGTCT
AGTAAAACGATTCAAGATGTACCCGTTGAAATTCTTTATAACACTAAAGATTTGCATTTA
ACAAAAGCGCCTGAAACAGTTAATGTGACTATTTCAGGACCACAATCAAAGATAATAAAA
ATTGAAAATCCAGAAGATTTAAGAGTAGTGATTGATTTATCAAATGCTAAAGCTGGAAAA
TATCAAGAGAAGTATCAAGTTAAAGGGTTAGCTGATGACATTCATTATTCTGTAAAACCT
AAATTAGCAAATATTACGCTTGAAAACAAAGTAACTAAAAAGATGACAGTTCAACCTGAT
GTAAGTCAGAGTGATATTGATCCACTTTATAAAATTACAAAGCAAGAAGTTTCACCACAA
ACAGTTAAAGTAACAGGTGGAGAAGAACAATTGAATGATATCGCTTATTTAAAAGCCACT
TTTAAAACTAATAAAAAGATTAATGGTGACACAAAAGATGTCGCAGAAGTAACGGCTTTT
GATAAAAAACTGAATAAATTAAATGTATCGATTCAACCTAATGAAGTGAATTTACAAGTT
AAAGTAGAGCCTTTTAGCAAAAAGGTTAAAGTAAATGTTAAACAGAAAGGTAGTTTAGCA
GATGATAAAGAGTTAAGTTCGATTGATTTAGAAGATAAAGAAATTGAAATCTTCGGTAGT
CGAGATGACTTACAAAATATAAGCGAAGTTGATGCAGAAGTAGATTTAGATGGTATTTCA
GAATCAACTGAAAAGACTGTAAAAATCAATTTACCAGAACATGTCACTAAAGCACAACCA
AGTGAAACGAAGGCTTATATAAATGTAAAATAA
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933

⊟Protein[edit | edit source]

⊟General[edit | edit source]

locus tag: SAOUHSC_02406
symbol: SAOUHSC_02406
description: hypothetical protein
length: 310
theoretical pI: 6.32995
theoretical MW: 34624.2
GRAVY: -0.443871

⊟Function[edit | edit source]

TIGRFAM:
TheSEED :
- uncharacterized secreted protein, YBBR Bacillus subtilis homolog
⊞⊞PFAM:
no clan defined YbbR; YbbR-like protein (PF07949; HMM-score: 104.6)
and 2 more
CCDC138_cc; Coiled-coil-domain-containing protein 138, coiled-coil (PF21037; HMM-score: 13.5)
ATP_synthase (CL0255) ATP-synt_8; ATP synthase protein 8 (PF00895; HMM-score: 11.8)

⊟Structure, modifications & cofactors[edit | edit source]

domains:
modifications:
cofactors:
effectors:

⊟Localization[edit | edit source]

⊞⊞
PSORTb: unknown (no significant prediction)
- Cytoplasmic Score: 2.5
- Cytoplasmic Membrane Score: 2.5
- Cellwall Score: 2.5
- Extracellular Score: 2.5
- Internal Helix: 1
⊞⊞
DeepLocPro: Cytoplasmic Membrane
- Cytoplasmic Score: 0.0001
- Cytoplasmic Membrane Score: 0.9989
- Cell wall & surface Score: 0.0005
- Extracellular Score: 0.0005
⊞⊞
LocateP: N-terminally anchored (No CS)
- Prediction by SwissProt Classification: Membrane
- Pathway Prediction: Sec-(SPI)
- Intracellular possibility: 0.17
- Signal peptide possibility: 1
- N-terminally Anchored Score: 2
- Predicted Cleavage Site: No CleavageSite
⊞⊞
SignalP: Signal peptide SP(Sec/SPI) length 28 aa
- SP(Sec/SPI): 0.846006
- TAT(Tat/SPI): 0.002594
- LIPO(Sec/SPII): 0.02281
- Cleavage Site: CS pos: 28-29. VFG-NI. Pr: 0.7728
predicted transmembrane helices (TMHMM): 1

⊟Accession numbers[edit | edit source]

GI: 88196067 NCBI
RefSeq: YP_500882 NCBI
UniProt: Q2FW93 UniProt
STRING: 93061.SAOUHSC_02406 STRING

⊟Protein sequence[edit | edit source]

MLESKWGLRFIAFLLALFFFLSVNNVFGNIFNTGNLGQKSSKTIQDVPVEILYNTKDLHLTKAPETVNVTISGPQSKIIKIENPEDLRVVIDLSNAKAGKYQEKYQVKGLADDIHYSVKPKLANITLENKVTKKMTVQPDVSQSDIDPLYKITKQEVSPQTVKVTGGEEQLNDIAYLKATFKTNKKINGDTKDVAEVTAFDKKLNKLNVSIQPNEVNLQVKVEPFSKKVKVNVKQKGSLADDKELSSIDLEDKEIEIFGSRDDLQNISEVDAEVDLDGISESTEKTVKINLPEHVTKAQPSETKAYINVK

⊟Experimental data[edit | edit source]

experimentally validated: PeptideAtlas ^[1] ^[2]
protein localization: data available for COL
quantitative data / protein copy number per cell:
interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

MicrobesOnline: glmM < SAOUHSC_02406 < SAOUHSC_02407
predicted SigA promoter ^[3] : glmM < SAOUHSC_02406 < SAOUHSC_02407

⊟Regulation[edit | edit source]

regulator:

⊟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]

⊞Other Information[edit | edit source]

⊟Literature[edit | edit source]

⊟References[edit | edit source]

↑ Maren Depke, Stephan Michalik, Alexander Rabe, Kristin Surmann, Lars Brinkmann, Nico Jehmlich, Jörg Bernhardt, Michael Hecker, Bernd Wollscheid, Zhi Sun, Robert L Moritz, Uwe Völker, Frank Schmidt
A peptide resource for the analysis of Staphylococcus aureus in host-pathogen interaction studies.
Proteomics: 2015, 15(21);3648-61
[PubMed:26224020] [WorldCat.org] [DOI] (I p)
↑ Stephan Michalik, Maren Depke, Annette Murr, Manuela Gesell Salazar, Ulrike Kusebauch, Zhi Sun, Tanja C Meyer, Kristin Surmann, Henrike Pförtner, Petra Hildebrandt, Stefan Weiss, Laura Marcela Palma Medina, Melanie Gutjahr, Elke Hammer, Dörte Becher, Thomas Pribyl, Sven Hammerschmidt, Eric W Deutsch, Samuel L Bader, Michael Hecker, Robert L Moritz, Ulrike Mäder, Uwe Völker, Frank Schmidt
A global Staphylococcus aureus proteome resource applied to the in vivo characterization of host-pathogen interactions.
Sci Rep: 2017, 7(1);9718
[PubMed:28887440] [WorldCat.org] [DOI] (I e)
↑ ^{Jump up to: 3.0} ^3.1 Ulrike Mäder, Pierre Nicolas, Maren Depke, Jan Pané-Farré, Michel Debarbouille, Magdalena M van der Kooi-Pol, Cyprien Guérin, Sandra Dérozier, Aurelia Hiron, Hanne Jarmer, Aurélie Leduc, Stephan Michalik, Ewoud Reilman, Marc Schaffer, Frank Schmidt, Philippe Bessières, Philippe Noirot, Michael Hecker, Tarek Msadek, Uwe Völker, Jan Maarten van Dijl
Staphylococcus aureus Transcriptome Architecture: From Laboratory to Infection-Mimicking Conditions.
PLoS Genet: 2016, 12(4);e1005962
[PubMed:27035918] [WorldCat.org] [DOI] (I e)

⊟Relevant publications[edit | edit source]

P Glanzmann, J Gustafson, H Komatsuzawa, K Ohta, B Berger-Bächi
glmM operon and methicillin-resistant glmM suppressor mutants in Staphylococcus aureus.
Antimicrob Agents Chemother: 1999, 43(2);240-5
[PubMed:9925512] [WorldCat.org] [DOI] (P p)

[pubmed26224020-1] Maren Depke, Stephan Michalik, Alexander Rabe, Kristin Surmann, Lars Brinkmann, Nico Jehmlich, Jörg Bernhardt, Michael Hecker, Bernd Wollscheid, Zhi Sun, Robert L Moritz, Uwe Völker, Frank Schmidt
A peptide resource for the analysis of Staphylococcus aureus in host-pathogen interaction studies.
Proteomics: 2015, 15(21);3648-61
[PubMed:26224020] [WorldCat.org] [DOI] (I p)

[pubmed28887440-2] Stephan Michalik, Maren Depke, Annette Murr, Manuela Gesell Salazar, Ulrike Kusebauch, Zhi Sun, Tanja C Meyer, Kristin Surmann, Henrike Pförtner, Petra Hildebrandt, Stefan Weiss, Laura Marcela Palma Medina, Melanie Gutjahr, Elke Hammer, Dörte Becher, Thomas Pribyl, Sven Hammerschmidt, Eric W Deutsch, Samuel L Bader, Michael Hecker, Robert L Moritz, Ulrike Mäder, Uwe Völker, Frank Schmidt
A global Staphylococcus aureus proteome resource applied to the in vivo characterization of host-pathogen interactions.
Sci Rep: 2017, 7(1);9718
[PubMed:28887440] [WorldCat.org] [DOI] (I e)

[pubmed27035918-3] {Jump up to: 3.0} ^3.1 Ulrike Mäder, Pierre Nicolas, Maren Depke, Jan Pané-Farré, Michel Debarbouille, Magdalena M van der Kooi-Pol, Cyprien Guérin, Sandra Dérozier, Aurelia Hiron, Hanne Jarmer, Aurélie Leduc, Stephan Michalik, Ewoud Reilman, Marc Schaffer, Frank Schmidt, Philippe Bessières, Philippe Noirot, Michael Hecker, Tarek Msadek, Uwe Völker, Jan Maarten van Dijl
Staphylococcus aureus Transcriptome Architecture: From Laboratory to Infection-Mimicking Conditions.
PLoS Genet: 2016, 12(4);e1005962
[PubMed:27035918] [WorldCat.org] [DOI] (I e)

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Links