References
describing the method (to cite when applying PIPSA)
Blomberg N, Gabdoulline RR, Nilges M, and Wade RC. Classification
of protein sequences by homology modeling and quantitative analysis of
electrostatic similarity.
Proteins: Str.,
Function and Genetics 1999, 37: 379-387. (Abstract)
First description of
the PIPSA procedure.
Wade
RC,
Gabdoulline RR and De Rienzo F. Protein Interaction
Property Similarity
Analysis.
Intl. J. Quant. Chem. 2001, 83:
122-127.
(Abstract) Detailed description of
PIPSA.
Gabdoulline RR, Stein
M, Wade RC. qPIPSA: Relating enzymatic kinetic
parameters and interaction fields
BMC Bioinformatics 2007, 8:
373. (Fulltext) Description of how
PIPSA
can be used for quantitative
prediction purposes.
Richter S, Wenzel A, Stein M, Gabdoulline RR, Wade RC.
webPIPSA: a web server for the comparison of protein interaction properties
Nucleic Acid Research, Web Server early access, doi:10.1093/nar/gkn181
. (Fulltext) Description of the PIPSA webserver
References describing applications
Tong R, Wade RC, Bruce NJ.
Comparative electrostatic analysis of adenylyl
cyclase for isoform dependent regulation properties.
Proteins. 2016
Dec;84(12):1844-1858.
doi: 10.1002/prot.25167.De
Rienzo
F, Gabdoulline RR, Menziani MC, Wade RC. Blue
copper proteins:
a comparative analysis of their molecular interaction properties.
Protein Sci. 2000, 9: 1439-54. (Abstract)
De
Rienzo
F, Gabdoulline RR, Menziani MC, De Benedetti PG and Wade RC. Electrostatic
Analysis and Brownian
Dynamics Simulation of the Association of Plastocyanin and Cytochrome F
Biophys. J. 2001, 81, 3090-3104. (Publication)
De
Rienzo
F, Grant GH, Menziani MC.
Theoretical descriptors for the
quantitative rationalisation of plastocyanin mutant functional
properties J.
Computer-Aided Molecular Design 2002, 16: 501-9. (Abstract)
Winn
PJ, Religa TL, Battey JN, Banerjee A, Wade RC. Determinants
of
functionality
in the ubiquitin conjugating enzyme family.
Structure (Camb). 2004, 12:
1563-74. (Abstract)
Schleinkofer
K. , Wiedemann U. , Otte l., Wang T., Krause G., Oschkinat H. and Wade
R.C. Comparative
Structural and Energetic
Analysis of WW Domain/Peptide Interactions.
J. Mol. Biol., 2004, 344,
865-881. (Abstract)
Flower DR and
Attwood TK Integrative
bioinformatics
for functional genome annotation: trawling for G protein-coupled
receptors Seminars in Cell
&Developmental Biol. 2004, 15: 693. (Abstract)
Soares DC, Gerloff
DL, Syme NR, Coulson AFW,Parkinson
J and Barlow PN
Large-scale modelling as a route to multiple surface comparisons of the
CCP module family Protein Eng. Design
Selection 2005, 18: 379-388 (Fulltext)
Wade RC Calculation and
Application of Molecular Interaction Fields.
In "Molecular Interaction Fields. Applications in Drug Discovery
and
ADME Prediction", Ed. Cruciani, G., Wiley-VCH, Weinheim.
(ISBN 3-527-31087-8) (2005) Ch.
2, pp27-42.
(Publisher
link) Zhang L, Morikis D Immunophysical Properties and
Prediction of
Activities for Vaccinia Virus Complement Control Protein and Smallpox
Inhibitor of Complement Enzymes Using Molecular Dynamics and
Electrostatics
Biophys. J 2006 90: 3106-19. (Fulltext) Winn
PJ, Zahran M, Battey JND,
Zhou Y, Wade RC, Banerjee A Structural
and
electrostatic properties of ubiquitination and related pathways Frontiers in
Bioscience (2007) 12,
3419-3430. (Abstract) (Figures)
Check
also: Ubiquitin
and Ubiquitin-like
Protein Web Resource .
Stein M, Gabdoulline
RR, Wade RC Bridging from molecular simulations to
biochemical networks
Curr. Op. Struct. Biol. 2007, 2:
166-172 (Abstract)
Henrich S, Richter S,
Wade RC On the use of PIPSA to guide
target-selective drug design
ChemMedChem (2008) i3, 413-417. (Abstract)
José M Eirín-López, Rodrigo González-Romero, Deanna Dryhurst,
Toyotaka Ishibashi and Juan Ausió
The evolutionary differentiation of two histone H2A.Z variants in
chordates (H2A.Z-1 and H2A.Z-2) is mediated by a stepwise
mutation process that affects three amino acid residues
BMC Evolutionary Biology 2009, 9:31 doi:10.1186/1471-2148-9-31 (Link).
Giorgio Cozza, Andrea Bortolato, and Stefano Moro
How Druggable Is Protein Kinase CK2?
Medicinal Research Reviews, Vol. 30, No. 3, 419--462, 2010 (Abstract)