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Performance of ZDOCK and IRAD in CAPRI rounds 39‐45

https://doi.org/10.1002/prot.25873
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1002/pro.2027openalex-snapshot
Prediction of protein–protein binding free energies
inferredcites →https://doi.org/10.1002/pro.687openalex-snapshot
Integrating atom‐based and residue‐based scoring functions for protein–protein docking
inferredcites →https://doi.org/10.1002/prot.10334openalex-snapshot
A novel shape complementarity scoring function for protein‐protein docking
inferredcites →https://doi.org/10.1002/prot.10381openalex-snapshot
CAPRI: A Critical Assessment of PRedicted Interactions
inferredcites →https://doi.org/10.1002/prot.10388openalex-snapshot
ZDOCK predictions for the CAPRI challenge
inferredcites →https://doi.org/10.1002/prot.10389openalex-snapshot
ZDOCK: An initial‐stage protein‐docking algorithm
inferredcites →https://doi.org/10.1002/prot.20559openalex-snapshot
ZDOCK and RDOCK performance in CAPRI rounds 3, 4, and 5
inferredcites →https://doi.org/10.1002/prot.21747openalex-snapshot
The performance of ZDOCK and ZRANK in rounds 6–11 of CAPRI
inferredcites →https://doi.org/10.1002/prot.22764openalex-snapshot
Performance of ZDOCK and ZRANK in CAPRI rounds 13–19
inferredcites →https://doi.org/10.1002/prot.22812openalex-snapshot
Docking by structural similarity at protein‐protein interfaces
inferredcites →https://doi.org/10.1002/prot.24022openalex-snapshot
Fast and accurate modeling of protein–protein interactions by combining template‐interface‐based docking with flexible refinement
inferredcites →https://doi.org/10.1002/prot.24432openalex-snapshot
Performance of ZDOCK in CAPRI rounds 20–26
inferredcites →https://doi.org/10.1002/prot.25186openalex-snapshot
Performance of ZDOCK and IRAD in CAPRI rounds 28–34
inferredcites →https://doi.org/10.1002/prot.25215openalex-snapshot
Modeling protein–protein and protein–peptide complexes: CAPRI 6th edition
inferredcites →https://doi.org/10.1002/prot.25419openalex-snapshot
The challenge of modeling protein assemblies: the CASP12‐CAPRI experiment
inferredcites →https://doi.org/10.1002/prot.340230303openalex-snapshot
A large‐scale experiment to assess protein structure prediction methods
inferredcites →https://doi.org/10.1006/jmbi.1993.1626openalex-snapshot
Comparative Protein Modelling by Satisfaction of Spatial Restraints
inferredcites →https://doi.org/10.1016/b978-0-12-381270-4.00019-6openalex-snapshot
Rosetta3
inferredcites →https://doi.org/10.1016/j.bpj.2009.12.1043openalex-snapshot
Docking by Structural Similarity at Protein-Protein Interfaces
inferredcites →https://doi.org/10.1016/j.cytogfr.2015.07.005openalex-snapshot
Insights into IL-23 biology: From structure to function
inferredcites →https://doi.org/10.1016/j.immuni.2017.12.008openalex-snapshot
Structural Activation of Pro-inflammatory Human Cytokine IL-23 by Cognate IL-23 Receptor Enables Recruitment of the Shared Receptor IL-12Rβ1
inferredcites →https://doi.org/10.1016/j.jmb.2015.07.016openalex-snapshot
Updates to the Integrated Protein–Protein Interaction Benchmarks: Docking Benchmark Version 5 and Affinity Benchmark Version 2
inferredcites →https://doi.org/10.1016/j.sbi.2013.08.002openalex-snapshot
Protein–protein interaction networks: the puzzling riches
inferredcites →https://doi.org/10.1016/s0022-2836(03)00670-3openalex-snapshot
Protein–Protein Docking with Simultaneous Optimization of Rigid-body Displacement and Side-chain Conformations
inferredcites →https://doi.org/10.1021/acs.analchem.8b02349openalex-snapshot
Estimating Interprotein Pairwise Interaction Energies in Cell Lysates from a Single Native Mass Spectrum
inferredcites →https://doi.org/10.1038/nmicrobiol.2016.189openalex-snapshot
Helicobacter pylori adhesin HopQ engages in a virulence-enhancing interaction with human CEACAMs
inferredcites →https://doi.org/10.1038/s41467-017-02784-7openalex-snapshot
Type IX secretion system PorM and gliding machinery GldM form arches spanning the periplasmic space
inferredcites →https://doi.org/10.1073/pnas.89.6.2195openalex-snapshot
Molecular surface recognition: determination of geometric fit between proteins and their ligands by correlation techniques.
inferredcites →https://doi.org/10.1093/nar/gki481openalex-snapshot
PatchDock and SymmDock: servers for rigid and symmetric docking
inferredcites →https://doi.org/10.1093/nar/gkw340openalex-snapshot
InterEvDock: a docking server to predict the structure of protein–protein interactions using evolutionary information
inferredcites →https://doi.org/10.1186/1471-2105-9-40openalex-snapshot
I-TASSER server for protein 3D structure prediction
inferredcites →https://doi.org/10.1371/journal.pone.0056645openalex-snapshot
Exploring Angular Distance in Protein-Protein Docking Algorithms
inferredcites →https://doi.org/10.15252/embj.201798664openalex-snapshot
The Helicobacter pylori adhesin protein HopQ exploits the dimer interface of human CEACAMs to facilitate translocation of the oncoprotein CagA
inferredcites →https://doi.org/10.15252/embj.201798665openalex-snapshot
Helicobacter pylori adhesin HopQ disrupts trans dimerization in human CEACAMs
inferredcites →https://doi.org/10.3390/ijms11103623openalex-snapshot
SwarmDock and the Use of Normal Modes in Protein-Protein Docking

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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MHC2AffyPred : A machine‐learning approach to estimate affinity of MHC class II peptides based on structural interaction fingerprints
inferred← citeshttps://doi.org/10.1007/s00044-024-03253-9openalex-snapshot
Revolutionizing drug discovery: an AI-powered transformation of molecular docking
inferred← citeshttps://doi.org/10.1016/j.canlet.2023.216600openalex-snapshot
Discovery of Kinetin in inhibiting colorectal cancer progression via enhancing PSMB1-mediated RAB34 degradation
inferred← citeshttps://doi.org/10.1016/j.csbj.2022.07.050openalex-snapshot
Prediction and validation of host-pathogen interactions by a versatile inference approach using Aspergillus fumigatus as a case study
inferred← citeshttps://doi.org/10.1016/j.ijbiomac.2025.145233openalex-snapshot
Structural characterization and anti-tumor immunomodulatory effects of polysaccharides from Astragalus mongholicus with different cultivation modes
inferred← citeshttps://doi.org/10.1016/j.jmgm.2021.108030openalex-snapshot
Molecular dynamics study of CDC25BR492L mutant causing the activity decrease of CDC25B
inferred← citeshttps://doi.org/10.1021/acs.jmedchem.4c00828openalex-snapshot
A Top-Down Design Approach for Generating a Peptide PROTAC Drug Targeting Androgen Receptor for Androgenetic Alopecia Therapy
inferred← citeshttps://doi.org/10.1038/s41598-023-42090-5openalex-snapshot
Enhanced antibody-antigen structure prediction from molecular docking using AlphaFold2
inferred← citeshttps://doi.org/10.1093/bioinformatics/btaf129openalex-snapshot
AI-augmented physics-based docking for antibody-antigen complex prediction
inferred← citeshttps://doi.org/10.1134/s0022093023060285openalex-snapshot
Interaction of Glycated Albumin with Receptor for Glycation End Products According to Molecular Modeling Data
inferred← citeshttps://doi.org/10.31857/s0869813923120026openalex-snapshot
Interaction of Glycated Albumin with Receptor for Glycation End Products According to Molecular Modeling Data
inferred← citeshttps://doi.org/10.3389/fmicb.2026.1884071openalex-snapshot
Screening of mutants, enzymatic properties, and scale-up fermentation for catalysis of naringin using recombinant α-L-rhamnosidase
inferred← citeshttps://doi.org/10.3390/ijms25063204openalex-snapshot
Molecular Basis for the Involvement of Mammalian Serum Albumin in the AGE/RAGE Axis: A Comprehensive Computational Study
inferred← citeshttps://doi.org/10.4155/tde-2023-0107openalex-snapshot
Targeted drug delivery to the thrombus by fusing streptokinase with a fibrin-binding peptide (CREKA): an in silico study
inferred← citeshttps://doi.org/10.7717/peerj.16419openalex-snapshot
Riding the wave of innovation: immunoinformatics in fish disease control
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