User profiles for J. Jeliazkov
Jeliazko R. JeliazkovGlaxoSmithKline Verified email at gsk.com Cited by 2898 |
Macromolecular modeling and design in Rosetta: recent methods and frameworks
The Rosetta software for macromolecular modeling, docking and design is extensively used
in laboratories worldwide. During two decades of development by a community of …
in laboratories worldwide. During two decades of development by a community of …
The Rosetta all-atom energy function for macromolecular modeling and design
… the 1/d i,j 12 term with a softer linear term for d i,j ≤ 0.6σ i,j . The term is computed using the
… m i,j and b i,j , which are fit to ensure derivative continuity at d i,j = 0.6σ i,j . After the linear …
… m i,j and b i,j , which are fit to ensure derivative continuity at d i,j = 0.6σ i,j . After the linear …
Modeling and docking of antibody structures with Rosetta
BD Weitzner, JR Jeliazkov, S Lyskov, N Marze… - Nature protocols, 2017 - nature.com
We describe Rosetta-based computational protocols for predicting the 3D structure of an
antibody from sequence (RosettaAntibody) and then docking the antibody to protein antigens (…
antibody from sequence (RosettaAntibody) and then docking the antibody to protein antigens (…
[HTML][HTML] Targeting the CoREST complex with dual histone deacetylase and demethylase inhibitors
…, JM Roberts, P Prusevich, JR Jeliazkov… - Nature …, 2018 - nature.com
Here we report corin, a synthetic hybrid agent derived from the class I HDAC inhibitor (entinostat)
and an LSD1 inhibitor (tranylcypromine analog). Enzymologic analysis reveals that …
and an LSD1 inhibitor (tranylcypromine analog). Enzymologic analysis reveals that …
[PDF][PDF] A compact vocabulary of paratope-epitope interactions enables predictability of antibody-antigen binding
… We translated the nucleotide sequences of V and J genes according to their ORFs (open
reading frame). As D genes can be truncated during the recombination process, we used …
reading frame). As D genes can be truncated during the recombination process, we used …
[PDF][PDF] An expanded benchmark for antibody-antigen docking and affinity prediction reveals insights into antibody recognition determinants
Accurate predictive modeling of antibody-antigen complex structures and structure-based
antibody design remain major challenges in computational biology, with implications for …
antibody design remain major challenges in computational biology, with implications for …
Plasma cells are the most abundant gluten peptide MHC-expressing cells in inflamed intestinal tissues from patients with celiac disease
…, OJB Landsverk, R Iversen, JR Jeliazkov… - Gastroenterology, 2019 - Elsevier
Background & Aims Development of celiac disease is believed to involve the
transglutaminase-dependent response of CD4 + T cells toward deamidated gluten peptides in the …
transglutaminase-dependent response of CD4 + T cells toward deamidated gluten peptides in the …
Acidic C-terminal domains autoregulate the RNA chaperone Hfq
10.7554/eLife.27049.001 The RNA chaperone Hfq is an Sm protein that facilitates base
pairing between bacterial small RNAs (sRNAs) and mRNAs involved in stress response and …
pairing between bacterial small RNAs (sRNAs) and mRNAs involved in stress response and …
The structural basis of PTEN regulation by multi-site phosphorylation
Phosphatase and tensin homolog (PTEN) is a phosphatidylinositol-3,4,5-triphosphate (PIP
3 ) phospholipid phosphatase that is commonly mutated or silenced in cancer. PTEN’s …
3 ) phospholipid phosphatase that is commonly mutated or silenced in cancer. PTEN’s …
[HTML][HTML] Repertoire analysis of antibody CDR-H3 loops suggests affinity maturation does not typically result in rigidification
Antibodies can rapidly evolve in specific response to antigens. Affinity maturation drives this
evolution through cycles of mutation and selection leading to enhanced antibody specificity …
evolution through cycles of mutation and selection leading to enhanced antibody specificity …