Gert Vriend

Q: What Schools Are Affiliated With Gert Vriend

Gert Vriend is affiliated with the following schools: University of Padua, University of Groningen, Radboud University Nijmegen

Gert Vriend's AcademicInfluence.com Rankings

Gert Vriend

Biology

#8608

World Rank

#11711

Historical Rank

Molecular Biology

#1103

World Rank

#1128

Historical Rank

biology Degrees

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Biology

Gert Vriend's Degrees

PhD Biophysics University of Groningen
Masters Chemistry University of Groningen

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Gert Vriend's Published Works

Number of citations in a given year to any of this author's works

Total number of citations to an author for the works they published in a given year. This highlights publication of the most important work(s) by the author

Published Works

WHAT IF: a molecular modeling and drug design program. (1990) (3504)
Errors in protein structures (1996) (2085)
Increasing the precision of comparative models with YASARA NOVA—a self‐parameterizing force field (2002) (1359)
YASARA View—molecular graphics for all devices—from smartphones to workstations (2014) (980)
A series of PDB related databases for everyday needs (2010) (877)
Protein structure analysis of mutations causing inheritable diseases. An e-Science approach with life scientist friendly interfaces (2010) (795)
Making optimal use of empirical energy functions: Force‐field parameterization in crystal space (2004) (787)
GPCRDB information system for G protein-coupled receptors (2003) (784)
Heterozygous Germline Mutations in the p53 Homolog p63 Are the Cause of EEC Syndrome (1999) (708)
Human dectin-1 deficiency and mucocutaneous fungal infections. (2009) (698)
A text-mining analysis of the human phenome (2006) (609)
Mutations in SMAD3 cause a syndromic form of aortic aneurysms and dissections with early-onset osteoarthritis (2011) (606)
New ways to boost molecular dynamics simulations (2015) (594)
A series of PDB-related databanks for everyday needs (2014) (581)
PredictProtein—an open resource for online prediction of protein structural and functional features (2014) (551)
PRODRG, a program for generating molecular topologies and unique molecular descriptors from coordinates of small molecules (1996) (548)
Conserved Role of a Complement-like Protein in Phagocytosis Revealed by dsRNA Knockout in Cultured Cells of the Mosquito, Anopheles gambiae (2001) (529)
Rational engineering of enzyme stability. (2004) (430)
A New Generation of Crystallographic Validation Tools for the Protein Data Bank (2011) (390)
GPCRdb: an information system for G protein-coupled receptors (2015) (339)
Homology modeling, model and software evaluation: three related resources (1998) (339)
Fast empirical pKa prediction by Ewald summation. (2006) (326)
Homology modeling. (2020) (247)
Costs and benefits of processivity in enzymatic degradation of recalcitrant polysaccharides (2006) (244)
Objectively judging the quality of a protein structure from a Ramachandran plot (1997) (230)
A database of protein structure families with common folding motifs (1992) (224)
Identification of Different Binding Sites in the Dendritic Cell-specific Receptor DC-SIGN for Intercellular Adhesion Molecule 3 and HIV-1* (2002) (199)
WeNMR: Structural Biology on the Grid (2011) (189)
Amyloids protect the silkmoth oocyte and embryo (2000) (188)
PDB_REDO: automated re-refinement of X-ray structure models in the PDB (2009) (183)
Collecting and harvesting biological data: the GPCRDB and NucleaRDB information systems (2001) (180)
Mutational and computational analysis of the role of conserved residues in the active site of a family 18 chitinase. (2004) (179)
Distinct clinical phenotypes associated with a mutation in the mitochondrial translation elongation factor EFTs. (2006) (178)
GPCRdb: the G protein‐coupled receptor database – an introduction (2016) (163)
Dominant missense mutations in ABCC9 cause Cantú syndrome (2012) (161)
Extreme Stabilization of a Thermolysin-like Protease by an Engineered Disulfide Bond* (1997) (161)
The use of position‐specific rotamers in model building by homology (1995) (156)
WIWS: a protein structure bioinformatics Web service collection (2010) (150)
3DM: Systematic analysis of heterogeneous superfamily data to discover protein functionalities (2010) (149)
Molecular docking using surface complementarity (1996) (148)
The PDBFINDER database: a summary of PDB, DSSP and HSSP information with added value (1996) (143)
A common motif in G-protein-coupled seven transmembrane helix receptors (1993) (141)
A common step for signal transduction in G protein-coupled receptors. (1994) (141)
CING: an integrated residue-based structure validation program suite (2012) (132)
Isolation of Llama Antibody Fragments for Prevention of Dandruff by Phage Display in Shampoo (2005) (126)
Targeting CD40-Induced TRAF6 Signaling in Macrophages Reduces Atherosclerosis (2018) (122)
Models@Home: distributed computing in bioinformatics using a screensaver based approach (2002) (122)
Tools and data services registry: a community effort to document bioinformatics resources (2015) (120)
Blocking CD40-TRAF6 signaling is a therapeutic target in obesity-associated insulin resistance (2014) (118)
Improving macromolecular electrostatics calculations. (1999) (114)
Mutations of ESRRB encoding estrogen-related receptor beta cause autosomal-recessive nonsyndromic hearing impairment DFNB35. (2008) (108)
GeneSeeker: extraction and integration of human disease-related information from web-based genetic databases (2005) (108)
DRESS: a database of REfined solution NMR structures (2004) (103)
Automatic rebuilding and optimization of crystallographic structures in the Protein Data Bank (2011) (91)
Molden 2.0: quantum chemistry meets proteins (2017) (91)
Traditional Biomolecular Structure Determination by NMR Spectroscopy Allows for Major Errors (2005) (90)
Exploring Protein Dynamics Space: The Dynasome as the Missing Link between Protein Structure and Function (2012) (89)
Structural determinants of the stability of thermolysin-like proteinases (1995) (86)
Correlated Mutation Analyses on Very Large Sequence Families (2002) (83)
GPCR-OKB: the G Protein Coupled Receptor Oligomer Knowledge Base (2010) (82)
Validation of protein structures derived by NMR spectroscopy (2004) (82)
Correlated mutation analyses on super‐family alignments reveal functionally important residues (2009) (82)
Quantitative evaluation of experimental NMR restraints. (2003) (82)
The precision of NMR structure ensembles revisited (2003) (79)
A low resolution model for the interaction of G proteins with G protein-coupled receptors. (1999) (78)
Induced refolding of a temperature denatured llama heavy‐chain antibody fragment by its antigen (2005) (73)
Prediction of protein residue contacts with a PDB-derived likelihood matrix. (2002) (71)
Prediction and analysis of structure, stability and unfolding of thermolysin-like proteases (1993) (68)
GPCRDB: information system for G protein-coupled receptors (2010) (65)
Re-refinement from deposited X-ray data can deliver improved models for most PDB entries (2009) (63)
Missense mutations in POU4F3 cause autosomal dominant hearing impairment DFNA15 and affect subcellular localization and DNA binding (2008) (61)
Homology modelling and spectroscopy, a never-ending love story (2009) (60)
Toward a Consensus Model of the hERG Potassium Channel (2010) (60)
The role of the second and third extracellular loops of the adenosine A1 receptor in activation and allosteric modulation. (2012) (56)
GRIS: glycoprotein-hormone receptor information system. (2006) (56)
Discovery of Small Molecule CD40-TRAF6 Inhibitors (2015) (54)
Potential ligand-binding residues in rat olfactory receptors identified by correlated mutation analysis. (1995) (53)
The Effects of Modifying the Surface Charge on the Catalytic Activity of a Thermolysin-like Protease* (2002) (51)
Cloning and sequence analysis of the gene encoding human lymphocyte prolyl endopeptidase. (1994) (51)
The EMBRACE web service collection (2010) (50)
Correcting ligands, metabolites, and pathways (2006) (49)
The purification, characterization and analysis of primary and secondary-structure of prolyl oligopeptidase from human lymphocytes. Evidence that the enzyme belongs to the alpha/beta hydrolase fold family. (1995) (49)
Integrins of Anopheles gambiae and a putative role of a new beta integrin, BINT2, in phagocytosis of E. coli. (2006) (49)
Requirements and ontology for a G protein-coupled receptor oligomerization knowledge base (2007) (48)
The interaction of class B G protein-coupled receptors with their hormones. (1998) (48)
PDB Improvement Starts with Data Deposition (2007) (47)
MRS: a fast and compact retrieval system for biological data (2005) (45)
Stabilization of peptide fibrils by hydrophobic interaction. (2007) (43)
GPCRdb: an information system for G protein-coupled receptors (2016) (43)
iPPI-DB: an online database of modulators of protein–protein interactions (2015) (42)
NRG-CING: integrated validation reports of remediated experimental biomolecular NMR data and coordinates in wwPDB (2011) (40)
A sequence and structural study of transmembrane helices (2001) (39)
An active registry for bioinformatics web services (2009) (38)
Stabilization of a chitinase from Serratia marcescens by Gly-->Ala and Xxx-->Pro mutations. (2003) (38)
GPCRDB: an information system for G protein-coupled receptors. (1998) (38)
Tracing evolutionary pressure (2008) (37)
The role of the dopamine D1 receptor in social cognition: studies using a novel genetic rat model (2016) (36)
Alpha-Bulges in G Protein-Coupled Receptors (2014) (36)
SNP Linkage Analysis and Whole Exome Sequencing Identify a Novel POU4F3 Mutation in Autosomal Dominant Late-Onset Nonsyndromic Hearing Loss (DFNA15) (2013) (35)
Amyloid‐like fibrils from an 18‐residue peptide analogue of a part of the central domain of the B‐family of silkmoth chorion proteins (2001) (35)
Stabilization of protein-protein interaction complexes through small molecules. (2016) (34)
Drug design for ever, from hype to hope (2012) (33)
Clinical and molecular characterizations of novel POU3F4 mutations reveal that DFN3 is due to null function of POU3F4 protein. (2009) (32)
Proteases and their inhibitors: today and tomorrow. (1991) (31)
On the complexity of Engh and Huber refinement restraints: the angle τ as example (2010) (31)
The mutations in FGFR2-associated craniosynostoses are clustered in five structural elements of immunoglobulin-like domain III of the receptor (1998) (30)
The bio.tools registry of software tools and data resources for the life sciences (2019) (28)
The NMR restraints grid at BMRB for 5,266 protein and nucleic acid PDB entries (2009) (28)
New Biological Insights from Better Structure Models. (2016) (28)
BDB: databank of PDB files with consistent B-factors. (2014) (28)
Aggregation of population‐based genetic variation over protein domain homologues and its potential use in genetic diagnostics (2017) (26)
GPCRDB: an information system for G protein-coupled receptors (2013) (25)
Detection of trans–cis flips and peptide-plane flips in protein structures (2015) (24)
Identification of class-determining residues in G protein-coupled receptors by sequence analysis. (1997) (24)
CASP2 molecular docking predictions with the LIGIN software (1997) (23)
Conformational transitions accompanying oligomerization of yeast alcohol oxidase, a peroxisomal flavoenzyme. (1999) (23)
Consensus engineering of sucrose phosphorylase: The outcome reflects the sequence input (2013) (23)
NucleaRDB: information system for nuclear receptors (2011) (22)
NRMD: Nuclear Receptor Mutation Database (2003) (21)
Molecular characterization of an extracellular acid-resistant lipase produced by Rhizopus javanicus. (1993) (21)
A missense variant of the ATP1A2 gene is associated with a novel phenotype of progressive sensorineural hearing loss associated with migraine (2014) (21)
The effect of novel mutations on the structure and enzymatic activity of unconventional myosins associated with autosomal dominant non-syndromic hearing loss (2014) (20)
Systematic generation of in vivo G protein-coupled receptor mutants in the rat (2010) (19)
KMAD: knowledge-based multiple sequence alignment for intrinsically disordered proteins (2015) (19)
A novel COCH mutation associated with autosomal dominant nonsyndromic hearing loss disrupts the structural stability of the vWFA2 domain (2012) (19)
3D-e-Chem-VM: Structural Cheminformatics Research Infrastructure in a Freely Available Virtual Machine (2017) (19)
Concepts and Tools for NMR Restraint Analysis and Validation (2004) (18)
Validation and correction of Zn–CysxHisy complexes (2016) (18)
A Molecular Switch Driving Inactivation in the Cardiac K+ Channel hERG (2012) (17)
Interchain cysteine bridges control entry of progesterone to the central cavity of the uteroglobin dimer. (1992) (16)
Molecular Determinants of the Interaction of Mad with the PAH2 Domain of mSin3* (2004) (16)
Definition of a New Information-Based Per-Residue Quality Parameter (2005) (15)
Key challenges for the creation and maintenance of specialist protein resources (2015) (15)
Identification of residues essential for progesterone binding to uteroglobin by site-directed mutagenesis (1991) (15)
The moonlighting function of pyruvate carboxylase resides in the non-catalytic end of the TIM barrel. (2010) (14)
Integrating GPCR-specific information with full text articles (2011) (14)
Progesterone binding to uteroglobin: two alternative orientations of the ligand. (1995) (12)
In Silico Structure and Sequence Analysis of Bacterial Porins and Specific Diffusion Channels for Hydrophilic Molecules: Conservation, Multimericity and Multifunctionality (2016) (12)
3D‐e‐Chem: Structural Cheminformatics Workflows for Computer‐Aided Drug Discovery (2018) (11)
Outer membrane phospholipase A’s roles in Helicobacter pylori acid adaptation (2017) (10)
3D-Fun: predicting enzyme function from structure (2008) (10)
Visually impaired researchers get their hands on quantum chemistry: application to a computational study on the isomerization of a sterol (2014) (10)
G protein-coupled receptors of class A harness the energy of membrane potential to increase their sensitivity and selectivity. (2019) (9)
NewProt – a protein engineering portal (2017) (9)
Batch mode generation of residue-based diagrams of proteins (2003) (9)
CorNet: Assigning function to networks of co-evolving residues by automated literature mining (2017) (8)
Trypsin sensitivity of several human rhinovirus serotypes in their low pH-induced conformation. (1989) (8)
AsteriX: A Web Server To Automatically Extract Ligand Coordinates from Figures in PDF Articles (2012) (8)
Creating a specialist protein resource network: a meeting report for the protein bioinformatics and community resources retreat (2015) (8)
NRSAS: Nuclear Receptor Structure Analysis Servers (2003) (8)
Negative Constraints Underlie the ErbB Specificity of Epidermal Growth Factor-like Ligands* (2006) (5)
Blind and Visually Impaired Students Can Perform Computer-Aided Molecular Design with an Assistive Molecular Fabricator (2015) (5)
Loop modelling 1.0. (2018) (5)
Clinical and molecular characterizations of novel POU 3 F 4 mutations reveal that DFN 3 is due to null function of POU 3 F 4 protein (2009) (4)
Full window stereo. (1999) (4)
Facilities that make the PDB data collection more powerful (2019) (4)
Modeling GPCRs. (2006) (4)
Improved coordinate reconstruction from stereo diagrams. (1996) (4)
Status quo of annotation of human disease variants (2013) (4)
Rendering One Autolysis Site in Bacillus Subtilis Neutral Protease Resistant to Cleavage Reveals a New Fission (1998) (4)
Anomalies in the refinement of isoleucine (2014) (4)
Forecasting residue‐residue contact prediction accuracy (2017) (4)
The Future of Protein Secondary Structure Prediction Was Invented by Oleg Ptitsyn (2020) (3)
On the specificity of carboxypeptidase N, a comparative study. (1993) (3)
Correlated mutations select misfolded from properly folded proteins (2017) (3)
A novel COCH mutation associated with autosomal dominant nonsyndromic hearing loss disrupts the structural stability of the vWFA2 domain (2012) (3)
Automatic rebuilding and optimization of crystallographic structures in the PDB (2011) (3)
The Dynasome as the Missing Link Between Protein Structure and Function (2012) (2)
Accessing Scientific Applications through the WNoDeS Cloud Virtualization Framework (2014) (2)
Detection oftrans–cisflips and peptide plane flips in protein structures (2015) (2)
A Critical Note on Symmetry Contact Artifacts and the Evaluation of the Quality of Homology Models (2018) (2)
Protein Structures: What Good Is Beauty If It Cannot Be Seen? (2003) (2)
The Inverse Gamma Distribution and Benford's Law (2016) (2)
Quantum chemical study of the isomerization of 24-methylenecycloartanol, a potential marker of olive oil refining (2015) (2)
GPCRs: Past, present, and future (2010) (2)
Status quo of annotation of human disease variants (2013) (1)
Bio‐knowledge‐based filters improve residue‐residue contact prediction accuracy (2018) (1)
Harvesting the information from a family of proteins (2008) (1)
Correlated mutations distinguish misfolded and properly folded proteins (2017) (1)
Erratum: Blocking CD40-TRAF6 signaling is a therapeutic target in obesity-associated insulin resistance (Proceedings of the National Academy of Sciences of the United States of America (2014) 111, 7 (2686-2691) DOI: 10.1073/pnas.1400419111) (2014) (1)
a community effort to document bioinformatics resources (2015) (1)
Protein Three-Dimensional Structure Validation (2007) (1)
Molecular Determinants in K+ Channel hERG Inactivation Gating (2012) (1)
The bio.tools registry of software tools and data resources for the life sciences (2019) (1)
Molecular modeling of pharmaceutically important targets (1997) (1)
The EMBRACE registry. (2008) (1)
COST Action BM 1006 (SeqAhead): MC BUSINESS MEETING AND SCIENTIFIC MEETING (2012) (0)
Comparative model building of plasma carboxypeptidase U (1994) (0)
Information flux through proteins (2004) (0)
SUPERSTABLE E65Q MUTANT OF LEISHMANIA MEXICANA TRIOSEPHOSPHATE ISOMERASE (TIM) (2000) (0)
Genome wide copy number analysis and gene expression profiling of CHEK 2 * 1100 delC and BRCA 1 hereditary breast cancer (2008) (0)
Entropy and Variability: A Second Opinion by Deep Learning (2022) (0)
Fun : predicting enzyme function from structure (2017) (0)
The role of the dopamine D 1 receptor in social cognition (2016) (0)
GOBLET: achievements and goals a year on (2014) (0)
Validation and correction of carbohydrate 3D structures (2008) (0)
Comparative molecular modeling of the active subunit of human kininase I. (1992) (0)
Abstract 611: Blocking CD40-TRAF6 Signaling is a Novel Therapeutic Target in Obesity-Associated Insulin Resistance (2014) (0)
MCSIS heterogeneous data handling (2006) (0)
Classification of peptide receptors by analysis of correlated mutations (1995) (0)
Class A GPCRs use the membrane potential to increase their sensitivity and selectivity (2019) (0)
The NewProt Self-Service Portal for Protein Engineering (2014) (0)
University of Groningen Conformational transitions accompanying oligomerization of yeast alcohol oxidase, a peroxisomal flavoenzyme Boteva, (1999) (0)
Invited Talk: Information Flux Through Proteins (2004) (0)
3D structure based multiple sequence alignments applied to rational enzyme design and DNA diagnostics. (2008) (0)
NewProt 1.0 (2017) (0)
Common Pitfalls and Novel Opportunities for Predicting Variant Pathogenicity (2016) (0)
ECCB 2012 Organization (2012) (0)
Molecular modelling and macromolecular visualisation with WHAT IF (1998) (0)
Structure Ways & Means A New Generation of Crystallographic Validation Tools for the Protein Data Bank (0)
MRS-file data structure (2011) (0)
nar / gkn 308 3 D-Fun : predicting enzyme function from structure (2008) (0)
Three-Dimensional Structure of a Llama VHH Domain OE7 binding the cell wall protein Malf1 (2005) (0)
Class A GPCRs harness the energy of membrane potential to increase their sensitivity and selectivity (2020) (0)
Structural anomalies in a published NMR-derived structure of IRAK-M. (2021) (0)
Abstracts from the ninth annual meeting of the molecular graphics societyWhat if you want to superimpose proteins (1990) (0)
Combinatorial algorithms in bioinformatics (2004) (0)
University of Groningen Extreme stabilization of a thermolysin-like protease by an engineered disulfide bond Mansfeld, (1997) (0)
CING: an integrated residue-based structure validation program suite (2012) (0)
P.23-007-Mon Virtual high-throughput screening for identification of Plasmodium falciparum protein kinase CK2-alpha inhibitors through targeting the active, allosteric and subunit interface sites (0)
Overview of GeneSeeker (2011) (0)
THE INVERSE GAMMA DISTRIBUTION AND BENFORD ’ (2017) (0)
New features and improvements in carbohydrate three-dimensional structure validation (2012) (0)
Physicist's simple access to protein structures: the computer program WHAT IF (2001) (0)
Combinatoriële algoritmen in de bioinformatica (2004) (0)
Quantifying the deformability of malaria-infected red blood cells using deep learning trained on synthetic cells (2022) (0)
Ten Simples Rules on How to Organise a Bioinformatics Hackathon (2021) (0)
Cis-trans flips: peptide bond conformation correction (2015) (0)

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What Schools Are Affiliated With Gert Vriend?

Gert Vriend is affiliated with the following schools: