Publications by Zander Harteveld

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Computational protein design has emerged as a powerful tool capable of identifying sequences compatible with pre-defined protein structures. The sequence design protocols, implemented in the Rosetta suite, have become widely used in the protein engineering ...

Optogenetic control of CRISPR-Cas9 systems has significantly improved our ability to perform genome perturbations in living cells with high precision in time and space. As new Cas orthologues with advantageous properties are rapidly being discovered and en ...

Physical interactions between proteins are essential for most biological processes governing life. However, the molecular determinants of such interactions have been challenging to understand, even as genomic, proteomic and structural data increase. This k ...

The sheer size of the protein sequence space is massive: a protein of 100 residues can have 20^100 possible sequence combinations; and knowing that this exceeds the number of atoms in the universe, the chance of randomly discovering a stable new sequence w ...

De novo protein design enables the exploration of novel sequences and structures absent from the natural protein universe. De novo design also stands as a stringent test for our understanding of the underlying physical principles of protein folding and may ...

BackgroundLarge-scale datasets of protein structures and sequences are becoming ubiquitous in many domains of biological research. Experimental approaches and computational modelling methods are generating biological data at an unprecedented rate. The deta ...

Anti-CRISPR (Acr) proteins are powerful tools to control CRISPR-Cas technologies. However, the available Acr repertoire is limited to naturally occurring variants. Here, we applied structure-based design on AcrIIC1, a broad-spectrum CRISPR-Cas9 inhibitor, ...

The present application relates to a computer-implemented systems and methods for protein interaction design using surface fingerprints. The method comprises predicting at least one target interface site with high binding propensity, wherein, optionally, t ...

Anti-CRISPR proteins are powerful tools for CRISPR-Cas9 regulation; the ability to precisely modulate their activity could facilitate spatiotemporally confined genome perturbations and uncover fundamental aspects of CRISPR biology. We engineered optogeneti ...

De novo protein design explores uncharted sequence and structure space to generate novel proteins not sampled by evolution. A main challenge in de novo design involves crafting “designable” structural templates to guide the sequence searches toward adoptin ...

Zander Harteveld

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A Rosetta-based protein design protocol converging to natural sequences

Optogenetic control of Neisseria meningitidis Cas9 genome editing using an engineered, light-switchable anti-CRISPR protein

De novo design of protein interactions with learned surface fingerprints

Towards automating de novo protein design for novel functionalities: controlling protein folds and protein-protein interactions

A generic framework for hierarchical de novo protein design

rstoolbox - a Python library for large-scale analysis of computational protein design data and structural bioinformatics

Computational design of anti-CRISPR proteins with improved inhibition potency

Systems and methods for de novo design of protein interactions with learned surface fingerprints

Engineered anti-CRISPR proteins for optogenetic control of CRISPR-Cas9

Exploring “dark-matter” protein folds using deep learning

Engineered Anti-CRISPR Proteins for Precision Control of CRISPR-Cas9

Machine Learning in Protein Science De Novo Design of Site-Specific Protein Binders Using Surface Fingerprints

De Novo Design of Site-specific Protein Binders Using Surface Fingerprints