References
1. Tonikian R, Zhang Y, Sazinsky SL, Currell B,
Yeh JH, Reva B et al (2008) A specificity map
for the PDZ domain family. PLoS Biol 6:e239
2. Luck K, Trave ´ G (2011) Phage display can
select over-hydrophobic sequences that may
impair prediction of natural domain–peptide
interactions. Bioinformatics 27:899–902
3. Smith CA, Kortemme T (2010) Structurebased prediction of the peptide sequence
space recognized by natural and synthetic
PDZ domains. J Mol Biol 402:460–474
4. Jadwin JA, Ogiue-Ikeda M, Machida K (2012)
The application of modular protein domains in
proteomics. FEBS Lett 586:2586–2596
5. Charbonnier S, Zanier K, Masson M, Trave ´ G
(2006) Capturing protein-protein complexes
at equilibrium: the holdup comparative chromatographic retention assay. Protein Expr Purif
50:89–101
6. Vincentelli R, Luck K, Poirson J, Polanowska J,
Abdat J, Ble ´mont M et al (2015) Quantifying
domain-ligand affinities and specificities by
high-throughput holdup assay. Nat Methods
12:787–793
7. Duhoo Y, Girault V, Turchetto J, Ramond L,
Durbesson F et al (2019) High-Throughput
production of a new library of human single
and tandem PDZ domains allows quantitative
PDZ-Peptide interaction screening through
high-throughput holdup assay. Methods Mol
Biol 2025:439–476
8. Go ´ gl G, Jane ´ P, Caillet-Saguy C, Kostmann C,
Bich G, Cousido-Siah A, Nyitray L,
Vincentelli R, Wolff N, Nomine ´ Y,
Sluchanko N, Trave ´ G (2020) Dual specificity
PDZ- and 14-3-3-Binding motifs: a structural
and interactomics study. Structure 28
(7):747–759.e3
9. Altria KD, Fabre H (1995) Approaches to optimisation of precision in capillary electrophoresis. Chromatographia 40:313–320
10. Ross GA (1997) Precision and quantitation in
capillary electrophoresis. In: Shintani H,
Polonsky ´ J (eds) Handbook of capillary electrophoresis applications. Springer, Dordrecht,
pp 41–55
11. Go ´ gl G, Biri-Kova ´cs B, Durbesson F, Jane ´ P,
Nomine ´ Y et al (2019) Rewiring of RSK–PDZ
interactome by linear motif phosphorylation. J
Mol Biol 431:1234–1249
12. Tramesel D, Catherinot V, Delsuc MA (2007)
Modeling of NMR processing, toward efficient
unattended processing of NMR experiments. J
Magn Reson 188:56–67
13. van Agthoven MA, Chiron L, Coutouly MA,
Delsuc
MA,
Rolando
C
(2012)
Two-dimensional ECD FT-ICR mass spectrometry of peptides and glycopeptides. Anal
Chem 84:5589–5595
74
Pau Jane ´ et al.
1. Tonikian R, Zhang Y, Sazinsky SL, Currell B,
Yeh JH, Reva B et al (2008) A specificity map
for the PDZ domain family. PLoS Biol 6:e239
2. Luck K, Trave ´ G (2011) Phage display can
select over-hydrophobic sequences that may
impair prediction of natural domain–peptide
interactions. Bioinformatics 27:899–902
3. Smith CA, Kortemme T (2010) Structurebased prediction of the peptide sequence
space recognized by natural and synthetic
PDZ domains. J Mol Biol 402:460–474
4. Jadwin JA, Ogiue-Ikeda M, Machida K (2012)
The application of modular protein domains in
proteomics. FEBS Lett 586:2586–2596
5. Charbonnier S, Zanier K, Masson M, Trave ´ G
(2006) Capturing protein-protein complexes
at equilibrium: the holdup comparative chromatographic retention assay. Protein Expr Purif
50:89–101
6. Vincentelli R, Luck K, Poirson J, Polanowska J,
Abdat J, Ble ´mont M et al (2015) Quantifying
domain-ligand affinities and specificities by
high-throughput holdup assay. Nat Methods
12:787–793
7. Duhoo Y, Girault V, Turchetto J, Ramond L,
Durbesson F et al (2019) High-Throughput
production of a new library of human single
and tandem PDZ domains allows quantitative
PDZ-Peptide interaction screening through
high-throughput holdup assay. Methods Mol
Biol 2025:439–476
8. Go ´ gl G, Jane ´ P, Caillet-Saguy C, Kostmann C,
Bich G, Cousido-Siah A, Nyitray L,
Vincentelli R, Wolff N, Nomine ´ Y,
Sluchanko N, Trave ´ G (2020) Dual specificity
PDZ- and 14-3-3-Binding motifs: a structural
and interactomics study. Structure 28
(7):747–759.e3
9. Altria KD, Fabre H (1995) Approaches to optimisation of precision in capillary electrophoresis. Chromatographia 40:313–320
10. Ross GA (1997) Precision and quantitation in
capillary electrophoresis. In: Shintani H,
Polonsky ´ J (eds) Handbook of capillary electrophoresis applications. Springer, Dordrecht,
pp 41–55
11. Go ´ gl G, Biri-Kova ´cs B, Durbesson F, Jane ´ P,
Nomine ´ Y et al (2019) Rewiring of RSK–PDZ
interactome by linear motif phosphorylation. J
Mol Biol 431:1234–1249
12. Tramesel D, Catherinot V, Delsuc MA (2007)
Modeling of NMR processing, toward efficient
unattended processing of NMR experiments. J
Magn Reson 188:56–67
13. van Agthoven MA, Chiron L, Coutouly MA,
Delsuc
MA,
Rolando
C
(2012)
Two-dimensional ECD FT-ICR mass spectrometry of peptides and glycopeptides. Anal
Chem 84:5589–5595
74
Pau Jane ´ et al.