Data-Driven Prediction and Design of bZIP Coiled-Coil Interactions

CCBuilder: an interactive web-based tool for building, designing and assessing coiled-coil protein assemblies

(2014) C. W. Wood et al.   BIOINFORMATICS

A Set of Computationally Designed Orthogonal Antiparallel Homodimers that Expands the Synthetic Coiled-Coil Toolkit

(2014) Christopher Negron et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

XBP1 promotes triple-negative breast cancer by controlling the HIF1α pathway

(2014) Xi Chen et al.   NATURE

Increasing the affinity of selective bZIP-binding peptides through surface residue redesign

(2014) Jenifer B. Kaplan et al.   PROTEIN SCIENCE

A Set of de Novo Designed Parallel Heterodimeric Coiled Coils with Quantified Dissociation Constants in the Micromolar to Sub-nanomolar Regime

(2013) Franziska Thomas et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Networks of bZIP Protein-Protein Interactions Diversified Over a Billion Years of Evolution

(2013) A. W. Reinke et al.   SCIENCE

Self-Assembling Cages from Coiled-Coil Peptide Modules

(2013) J. M. Fletcher et al.   SCIENCE

Strong Contributions from Vertical Triads to Helix-Partner Preferences in Parallel Coiled Coils

(2012) Jay D. Steinkruger et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Structure-based prediction of protein–protein interactions on a genome-wide scale

(2012) Qiangfeng Cliff Zhang et al.   NATURE

SYNZIP Protein Interaction Toolbox: in Vitro and in Vivo Specifications of Heterospecific Coiled-Coil Interaction Domains

(2012) Kenneth Evan Thompson et al.   ACS Synthetic Biology

A Basis Set of de Novo Coiled-Coil Peptide Oligomers for Rational Protein Design and Synthetic Biology

(2012) Jordan M. Fletcher et al.   ACS Synthetic Biology

Design of Peptide Inhibitors That Bind the bZIP Domain of Epstein–Barr Virus Protein BZLF1

(2011) T. Scott Chen et al.   JOURNAL OF MOLECULAR BIOLOGY

Determinants of Homodimerization Specificity in Histidine Kinases

(2011) Orr Ashenberg et al.   JOURNAL OF MOLECULAR BIOLOGY

Identification of bZIP Interaction Partners of Viral Proteins HBZ, MEQ, BZLF1, and K-bZIP Using Coiled-Coil Arrays

(2010) Aaron W. Reinke et al.   BIOCHEMISTRY

A regression framework incorporating quantitative and negative interaction data improves quantitative prediction of PDZ domain–peptide interaction from primary sequence

(2010) Xiaojian Shao et al.   BIOINFORMATICS

A Synthetic Coiled-Coil Interactome Provides Heterospecific Modules for Molecular Engineering

(2010) Aaron W. Reinke et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Side-Chain Pairing Preferences in the Parallel Coiled-Coil Dimer Motif: Insight on Ion Pairing between Core and Flanking Sites

(2010) Jay D. Steinkruger et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Design of protein-interaction specificity gives selective bZIP-binding peptides

(2009) Gevorg Grigoryan et al.   NATURE

Improved prediction of protein side-chain conformations with SCWRL4

(2009) Georgii G. Krivov et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Structural specificity in coiled-coil interactions

(2008) G GRIGORYAN et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Selectional and Mutational Scope of Peptides Sequestering the Jun–Fos Coiled-Coil Domain

(2008) Urs B. Hagemann et al.   JOURNAL OF MOLECULAR BIOLOGY

Designed α-Helical Tectons for Constructing Multicomponent Synthetic Biological Systems

(2008) Elizabeth H. C. Bromley et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Predicting PDZ domain–peptide interactions from primary sequences

(2008) Jiunn R Chen et al.   NATURE BIOTECHNOLOGY

Predicting helix orientation for coiled-coil dimers

(2008) James R. Apgar et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Specific interactions for ab initio folding of protein terminal regions with secondary structures

(2008) Yuedong Yang et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS