FAIRsharing.m4a6d3; Last edited: Jan. 8, 2019, 1:13 p.m.; Last accessed: Jan 03 2022 7:07 p.m.

metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:14.330706

hotregion
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:14.330706

Other names: hotregion

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Database of interaction Hotspots across the proteome. Hot spots are energetically important residues at protein interfaces and they are not randomly distributed across the interface but rather clustered. These clustered hot spots form hot regions. HotRegion, provides information of these interfaces by using predicted hot spot residues, and structural properties of these interface residues such as pair potentials of interface residues, accessible surface area (ASA) and relative ASA values of interface residues of both monomer and complex forms of proteins. Also, the 3D visualization of the interface and interactions among hot spot residues are provided.

Webpage:

http://prism.ccbb.ku.edu.tr/hotregion

Publications:

Publications
More detailed information about this field from each metasource.

Hot regions in protein--protein interactions: the organization and contribution of structurally conserved hot spot residues
PMID: 15644221
metasource: Fairsharing.org
version: FAIRsharing.org: HotRegion; HotRegion; DOI: https://doi.org/10.25504/FAIRsharing.m4a6d3; Last edited: Jan. 8, 2019, 1:13 p.m.; Last accessed: Jan 03 2022 7:07 p.m.

HotRegion: a database of predicted hot spot clusters
PMID: 22080558
metasource: Fairsharing.org
version: FAIRsharing.org: HotRegion; HotRegion; DOI: https://doi.org/10.25504/FAIRsharing.m4a6d3; Last edited: Jan. 8, 2019, 1:13 p.m.; Last accessed: Jan 03 2022 7:07 p.m.

metasource: Fairsharing.org
version: FAIRsharing.org: HotRegion; HotRegion; DOI: https://doi.org/10.25504/FAIRsharing.m4a6d3; Last edited: Jan. 8, 2019, 1:13 p.m.; Last accessed: Jan 03 2022 7:07 p.m.

metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:14.330706

Analysis of hot region organization in hub proteins
PMID: 20437205
metasource: Fairsharing.org
version: FAIRsharing.org: HotRegion; HotRegion; DOI: https://doi.org/10.25504/FAIRsharing.m4a6d3; Last edited: Jan. 8, 2019, 1:13 p.m.; Last accessed: Jan 03 2022 7:07 p.m.

http://dx.doi.org/10.1093/nar/GKR929
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

Hot regions in protein--protein interactions: the organization and contribution of structurally conserved hot spot residues PubMed citations: 183.

183 articles citing: Hot regions in protein--protein interactions: the organization and contribution of structurally conserved hot spot residues

Computational Study on the Dynamics of Mycobacterium Tuberculosis RNA Polymerase Assembly. PMID:35922622
ScanNet: an interpretable geometric deep learning model for structure-based protein binding site prediction. PMID:35637310
Small Molecule Agents Targeting PD-1 Checkpoint Pathway for Cancer Immunotherapy: Mechanisms of Action and Other Considerations for Their Advanced Development. PMID:35585982
Computational analysis of hot spots and binding mechanism in the PD-1/PD-L1 interaction. PMID:35516311
Functional inhibition of c-Myc using novel inhibitors identified through "hot spot" targeting. PMID:35378126
Rapid Rational Design of Cyclic Peptides Mimicking Protein-Protein Interfaces. PMID:35298817
Modeling the MreB-CbtA Interaction to Facilitate the Prediction and Design of Candidate Antibacterial Peptides. PMID:35155572
Protein-protein interaction of RdRp with its co-factor NSP8 and NSP7 to decipher the interface hotspot residues for drug targeting: A comparison between SARS-CoV-2 and SARS-CoV. PMID:35153334
Prediction of Protein-Protein Binding Affinities from Unbound Protein Structures. PMID:34888728
Computational Screening for the Anticancer Potential of Seed-Derived Antioxidant Peptides: A Cheminformatic Approach. PMID:34885982
Improve hot region prediction by analyzing different machine learning algorithms. PMID:34696728
NbX: Machine Learning-Guided Re-Ranking of Nanobody-Antigen Binding Poses. PMID:34681192
The investigation of nonsynonymous SNPs of human SLC6A4 gene associated with depression: An in silico approach. PMID:34466701
In silico Approaches for the Design and Optimization of Interfering Peptides Against Protein-Protein Interactions. PMID:33996914
Three-Finger Toxins from Brazilian Coral Snakes: From Molecular Framework to Insights in Biological Function. PMID:33946590
Direct targeting of β-catenin in the Wnt signaling pathway: Current progress and perspectives. PMID:33475177
Identification of the Primary Factors Determining theSpecificity of Human VKORC1 Recognition by Thioredoxin-Fold Proteins. PMID:33466919
Biophysical characterization of the ETV6 PNT domain polymerization interfaces. PMID:33450226
HISNAPI: a bioinformatic tool for dynamic hot spot analysis in nucleic acid-protein interface with a case study. PMID:33406224
Surveying the Side-Chain Network Approach to Protein Structure and Dynamics: The SARS-CoV-2 Spike Protein as an Illustrative Case. PMID:33392257
Scanning Protein Surfaces with DNA-Encoded Libraries. PMID:33295694
Rapid in silico Design of Potential Cyclic Peptide Binders Targeting Protein-Protein Interfaces. PMID:33134275
NMR Spectroscopy of supramolecular chemistry on protein surfaces. PMID:33093929
Predicting Hot Spot Residues at Protein-DNA Binding Interfaces Based on Sequence Information. PMID:33068261
SPOTONE: Hot Spots on Protein Complexes with Extremely Randomized Trees via Sequence-Only Features. PMID:33019775
Chemometric Models of Differential Amino Acids at the Navα and Navβ Interface of Mammalian Sodium Channel Isoforms. PMID:32756517
The oncogenic potential of small nuclear ribonucleoprotein polypeptide G: a comprehensive and perspective view. PMID:31814883
Structural and Computational Characterization of Disease-Related Mutations Involved in Protein-Protein Interfaces. PMID:30934865
Review: Precision medicine and driver mutations: Computational methods, functional assays and conformational principles for interpreting cancer drivers. PMID:30921324
Protein-Imprinted Polymers: The Shape of Things to Come? PMID:30880872
Methods for Discovering and Targeting Druggable Protein-Protein Interfaces and Their Application to Repurposing. PMID:30547433
Computer aided design of FtsZ targeting oligopeptides†. PMID:30405903
Small-molecule CaVα1⋅CaVβ antagonist suppresses neuronal voltage-gated calcium-channel trafficking. PMID:30355767
Machine Learning Approaches for Protein⁻Protein Interaction Hot Spot Prediction: Progress and Comparative Assessment. PMID:30287797
Protein-RNA interactions: structural characteristics and hotspot amino acids. PMID:30093489
The design of high affinity human PD-1 mutants by using molecular dynamics simulations (MD). PMID:29879980
Using Peptidomimetics and Constrained Peptides as Valuable Tools for Inhibiting Protein⁻Protein Interactions. PMID:29671834
A New Class of Antiretroviral Enabling Innate Immunity by Protecting APOBEC3 from HIV Vif-Dependent Degradation. PMID:29609878
Structural modelling of the DNAJB6 oligomeric chaperone shows a peptide-binding cleft lined with conserved S/T-residues at the dimer interface. PMID:29581438
Defining Pharmacological Targets by Analysis of Virus-Host Protein Interactions. PMID:29459033
Emerging Concepts in TCR Specificity: Rationalizing and (Maybe) Predicting Outcomes. PMID:28923982
A Computational Investigation of Small-Molecule Engagement of Hot Spots at Protein-Protein Interaction Interfaces. PMID:28766941
Prediction of Protein Hotspots from Whole Protein Sequences by a Random Projection Ensemble System. PMID:28718782
Characterizing the Hot Spots Involved in RON-MSPβ Complex Formation Using In Silico Alanine Scanning Mutagenesis and Molecular Dynamics Simulation. PMID:28507948
Systematic substitutions at BLIP position 50 result in changes in binding specificity for class A β-lactamases. PMID:28264645
Small Molecules Engage Hot Spots through Cooperative Binding To Inhibit a Tight Protein-Protein Interaction. PMID:28186725
BLIP-II Employs Differential Hotspot Residues To Bind Structurally Similar Staphylococcus aureus PBP2a and Class A β-Lactamases. PMID:28182405
A novel index of protein-protein interface propensity improves interface residue recognition. PMID:28155660
Cardiac Troponin and Tropomyosin: Structural and Cellular Perspectives to Unveil the Hypertrophic Cardiomyopathy Phenotype. PMID:27721798
Modeling of both shared and distinct interactions between MIF and its homologue D-DT with their common receptor CD74. PMID:27573366
Surface energetics and protein-protein interactions: analysis and mechanistic implications. PMID:27050828
Small molecules, big targets: drug discovery faces the protein-protein interaction challenge. PMID:27050677
Structure-activity relationship of the peptide binding-motif mediating the BRCA2:RAD51 protein-protein interaction. PMID:26992456
Dissociation of a Dynamic Protein Complex Studied by All-Atom Molecular Simulations. PMID:26910424
Protein Ensembles: How Does Nature Harness Thermodynamic Fluctuations for Life? The Diverse Functional Roles of Conformational Ensembles in the Cell. PMID:26807783
An Intriguing Correlation Based on the Superimposition of Residue Pairs with Inhibitors that Target Protein-Protein Interfaces. PMID:26730437
Are protein-protein interfaces special regions on a protein's surface? PMID:26723634
Co-Occurring Atomic Contacts for the Characterization of Protein Binding Hot Spots. PMID:26675422
Lessons from Hot Spot Analysis for Fragment-Based Drug Discovery. PMID:26538314
PPCheck: A Webserver for the Quantitative Analysis of Protein-Protein Interfaces and Prediction of Residue Hotspots. PMID:26448684
Developing multi-target therapeutics to fine-tune the evolutionary dynamics of the cancer ecosystem. PMID:26441664
Characterization of the Bacterioferritin/Bacterioferritin Associated Ferredoxin Protein-Protein Interaction in Solution and Determination of Binding Energy Hot Spots. PMID:26368531
New Frontiers in Druggability. PMID:26230724
The Contribution of Missense Mutations in Core and Rim Residues of Protein-Protein Interfaces to Human Disease. PMID:26173036
The FTMap family of web servers for determining and characterizing ligand-binding hot spots of proteins. PMID:25855957
Hotspots in an obligate homodimeric anticancer target. Structural and functional effects of interfacial mutations in human thymidylate synthase. PMID:25798950
Interolog interfaces in protein-protein docking. PMID:25740680
Targeting protein-protein interactions in hematologic malignancies: still a challenge or a great opportunity for future therapies? PMID:25510283
ECMIS: computational approach for the identification of hotspots at protein-protein interfaces. PMID:25228146
Understanding the interaction determinants of CAPN1 inhibition by CAST4 from bovines using molecular modeling techniques. PMID:25215589
VASP-E: specificity annotation with a volumetric analysis of electrostatic isopotentials. PMID:25166865
Structural insights for HIV-1 therapeutic strategies targeting Vif. PMID:25124760
Prediction of hot spots in protein interfaces using extreme learning machines with the information of spatial neighbour residues. PMID:25075532
Protein painting reveals solvent-excluded drug targets hidden within native protein-protein interfaces. PMID:25048602
Role of β-lactamase residues in a common interface for binding the structurally unrelated inhibitory proteins BLIP and BLIP-II. PMID:24947275
Modeling protein assemblies in the proteome. PMID:24445405
Molecular simulations of a dynamic protein complex: role of salt-bridges and polar interactions in configurational transitions. PMID:24268153
Specialized Dynamical Properties of Promiscuous Residues Revealed by Simulated Conformational Ensembles. PMID:24250278
Characterizing changes in the rate of protein-protein dissociation upon interface mutation using hotspot energy and organization. PMID:24039569
Trastuzumab-Peptide interactions: mechanism and application in structure-based ligand design. PMID:23955267
The extended transmembrane Orai1 N-terminal (ETON) region combines binding interface and gate for Orai1 activation by STIM1. PMID:23943619
Identification of small-molecule binding pockets in the soluble monomeric form of the Aβ42 peptide. PMID:23883055
Alternative splicing tends to avoid partial removals of protein-protein interaction sites. PMID:23758645
Druggable orthosteric and allosteric hot spots to target protein-protein interactions. PMID:23713780
Analysis of conformational motions and residue fluctuations for Escherichia coli ribose-binding protein revealed with elastic network models. PMID:23698778
Evolutionary, physicochemical, and functional mechanisms of protein homooligomerization. PMID:23663963
Comprehensive experimental and computational analysis of binding energy hot spots at the NF-κB essential modulator/IKKβ protein-protein interface. PMID:23506214
Predicting where small molecules bind at protein-protein interfaces. PMID:23505538
Structure and dynamics of molecular networks: a novel paradigm of drug discovery: a comprehensive review. PMID:23384594
Inferring homologous protein-protein interactions through pair position specific scoring matrix. PMID:23367879
Max Bergmann lecture protein epitope mimetics in the age of structural vaccinology. PMID:23349031
Optimization of CD4/gp120 inhibitors by thermodynamic-guided alanine-scanning mutagenesis. PMID:23066870
Correlating protein hot spot surface analysis using ProBiS with simulated free energies of protein-protein interfacial residues. PMID:23009716
A unifying motif of intermolecular cooperativity in protein associations. PMID:22791307
Structural analysis of B-cell epitopes in antibody:protein complexes. PMID:22784991
PocketQuery: protein-protein interaction inhibitor starting points from protein-protein interaction structure. PMID:22523085
An analysis of B-cell epitope discontinuity. PMID:22520973
Corresponding functional dynamics across the Hsp90 Chaperone family: insights from a multiscale analysis of MD simulations. PMID:22457611
Progressive dry-core-wet-rim hydration trend in a nested-ring topology of protein binding interfaces. PMID:22452998
Roles of residues in the interface of transient protein-protein complexes before complexation. PMID:22451863
A hot-spot motif characterizes the interface between a designed ankyrin-repeat protein and its target ligand. PMID:22325262
Computational prediction of protein hot spot residues. PMID:22316154
Fast and accurate modeling of protein-protein interactions by combining template-interface-based docking with flexible refinement. PMID:22275112
Identification of a small molecule that modulates platelet glycoprotein Ib-von Willebrand factor interaction. PMID:22232560
Small-molecule inhibitor starting points learned from protein-protein interaction inhibitor structure. PMID:22210869
Expanding the conformational selection paradigm in protein-ligand docking. PMID:22183530
Rationalizing tight ligand binding through cooperative interaction networks. PMID:22087588
HotRegion: a database of predicted hot spot clusters. PMID:22080558
Bound water at protein-protein interfaces: partners, roles and hydrophobic bubbles as a conserved motif. PMID:21961043
Mutations in protein-binding hot-spots on the hub protein Smad3 differentially affect its protein interactions and Smad3-regulated gene expression. PMID:21949838
Transient pockets on XIAP-BIR2: toward the characterization of putative binding sites of small-molecule XIAP inhibitors. PMID:21877153
Critical residue that promotes protein dimerization: a story of partially exposed Phe25 in 14-3-3σ. PMID:21870863
Rigorous assessment and integration of the sequence and structure based features to predict hot spots. PMID:21798070
Interrogation of the protein-protein interactions between human BRCA2 BRC repeats and RAD51 reveals atomistic determinants of affinity. PMID:21789034
DBAC: a simple prediction method for protein binding hot spots based on burial levels and deeply buried atomic contacts. PMID:21689480
Structural similarity and classification of protein interaction interfaces. PMID:21589874
Charged residues at protein interaction interfaces: unexpected conservation and orchestrated divergence. PMID:21563227
Role of hydration in collagen recognition by bacterial adhesins. PMID:21539794
WildSpan: mining structured motifs from protein sequences. PMID:21453542
In silico modeling of pH-optimum of protein-protein binding. PMID:21287623
A screen to identify small molecule inhibitors of protein-protein interactions in mycobacteria. PMID:21281130
Pyrrole-based scaffolds for turn mimics. PMID:21268601
The T cell receptor beta-chain second complementarity determining region loop (CDR2beta governs T cell activation and Vbeta specificity by bacterial superantigens. PMID:21127057
Assessing energetic contributions to binding from a disordered region in a protein-protein interaction. PMID:20836565
Nanoimaging for prion related diseases. PMID:20724837
Open source tool for prediction of genome wide protein-protein interaction network based on ortholog information. PMID:20684769
Protein subunit interfaces: A statistical analysis of hot spots in Sm proteins. PMID:20652820
Computational alanine scanning with linear scaling semiempirical quantum mechanical methods. PMID:20544968
Conserved residue clusters at protein-protein interfaces and their use in binding site identification. PMID:20507585
Sequence and structure continuity of evolutionary importance improves protein functional site discovery and annotation. PMID:20506260
Protein binding hot spots and the residue-residue pairing preference: a water exclusion perspective. PMID:20462403
CCRXP: exploring clusters of conserved residues in protein structures. PMID:20457748
HotPoint: hot spot prediction server for protein interfaces. PMID:20444871
Prediction of protein-protein interaction sites using electrostatic desolvation profiles. PMID:20441756
APIS: accurate prediction of hot spots in protein interfaces by combining protrusion index with solvent accessibility. PMID:20377884
ProBiS algorithm for detection of structurally similar protein binding sites by local structural alignment. PMID:20305268
The overlap of small molecule and protein binding sites within families of protein structures. PMID:20140189
Tradeoff between stability and multispecificity in the design of promiscuous proteins. PMID:20041208
Prediction of protein-protein interaction sites using an ensemble method. PMID:20015386
PCRPi: Presaging Critical Residues in Protein interfaces, a new computational tool to chart hot spots in protein interfaces. PMID:20008102
Prediction of hot spot residues at protein-protein interfaces by combining machine learning and energy-based methods. PMID:19878545
Investigation of the interaction between the large and small subunits of potato ADP-glucose pyrophosphorylase. PMID:19876371
A tool for calculating binding-site residues on proteins from PDB structures. PMID:19650927
Empirical estimation of the energetic contribution of individual interface residues in structures of protein-protein complexes. PMID:19479323
Evaluating docking methods for prediction of binding affinities of small molecules to the G protein betagamma subunits. PMID:19434844
A feature-based approach to modeling protein-protein interaction hot spots. PMID:19273533
Energetic determinants of protein binding specificity: insights into protein interaction networks. PMID:19253304
Knitting and untying the protein network: modulation of protein ensembles as a therapeutic strategy. PMID:19241367
A survey of available tools and web servers for analysis of protein-protein interactions and interfaces. PMID:19240123
Analysis of oligomeric proteins during unfolding by pH and temperature. PMID:19205760
'Double water exclusion': a hypothesis refining the O-ring theory for the hot spots at protein interfaces. PMID:19179356
The oligomerization of OxyR in Escherichia coli. PMID:19177355
E9-Im9 colicin DNase-immunity protein biomolecular association in water: a multiple-copy and accelerated molecular dynamics simulation study. PMID:19053689
Identification of hot-spot residues in protein-protein interactions by computational docking. PMID:18939967
Homology modelling of protein-protein complexes: a simple method and its possibilities and limitations. PMID:18844985
Protein-DNA interactions: structural, thermodynamic and clustering patterns of conserved residues in DNA-binding proteins. PMID:18801847
Insights into subunit interactions in the heterotetrameric structure of potato ADP-glucose pyrophosphorylase. PMID:18641076
PRISM: protein-protein interaction prediction by structural matching. PMID:18592198
Hot-spot residues at the E9/Im9 interface help binding via different mechanisms. PMID:18546205
MAGIIC-PRO: detecting functional signatures by efficient discovery of long patterns in protein sequences. PMID:18314547
Restricted mobility of conserved residues in protein-protein interfaces in molecular simulations. PMID:18227135
The modular organization of domain structures: insights into protein-protein binding. PMID:18069884
HotSprint: database of computational hot spots in protein interfaces. PMID:17959648
Characterization of protein hubs by inferring interacting motifs from protein interactions. PMID:17941705
Spatial chemical conservation of hot spot interactions in protein-protein complexes. PMID:17925020
Characterization of protein-protein interfaces. PMID:17851740
Ion pairs in non-redundant protein structures. PMID:17762142
Thermodynamically reengineering the listerial invasion complex InlA/E-cadherin. PMID:17715295
Recognizing protein-protein interfaces with empirical potentials and reduced amino acid alphabets. PMID:17662112
Protein-protein interaction hotspots carved into sequences. PMID:17630824
Identification of hot regions in protein-protein interactions by sequential pattern mining. PMID:17570867
Characterization of protomer interfaces in HslV protease; the bacterial homologue of 20S proteasome. PMID:17522969
AGGRESCAN: a server for the prediction and evaluation of "hot spots" of aggregation in polypeptides. PMID:17324296
Structural basis of T-cell specificity and activation by the bacterial superantigen TSST-1. PMID:17268555
Association of putative concave protein-binding sites with the fluctuation behavior of residues. PMID:17008715
MAGIIC-PRO: detecting functional signatures by efficient discovery of long patterns in protein sequences. PMID:16845025
Long-range cooperative binding effects in a T cell receptor variable domain. PMID:16788072
Protein interaction networks in plants. PMID:16575597
Structural basis of affinity maturation and intramolecular cooperativity in a protein-protein interaction. PMID:16338406
Oligomeric protein structure networks: insights into protein-protein interactions. PMID:16336694
Variation in structural location and amino acid conservation of functional sites in protein domain families. PMID:16122386
PRISM: protein interactions by structural matching. PMID:15991339
How similar are protein folding and protein binding nuclei? Examination of vibrational motions of energy hot spots and conserved residues. PMID:15596504
HotRegion: a database of predicted hot spot clusters PubMed citations: 37.

37 articles citing: HotRegion: a database of predicted hot spot clusters

Computational analysis of hot spots and binding mechanism in the PD-1/PD-L1 interaction. PMID:35516311
Protein-protein interaction of RdRp with its co-factor NSP8 and NSP7 to decipher the interface hotspot residues for drug targeting: A comparison between SARS-CoV-2 and SARS-CoV. PMID:35153334
Interactome analysis of Bag-1 isoforms reveals novel interaction partners in endoplasmic reticulum-associated degradation. PMID:34428256
mPPI: a database extension to visualize structural interactome in a one-to-many manner. PMID:34156447
Design of novel peptide inhibitors against the conserved bacterial transcription terminator, Rho. PMID:33845047
Neuropsychiatric Symptoms of COVID-19 Explained by SARS-CoV-2 Proteins' Mimicry of Human Protein Interactions. PMID:33833673
In Silico Investigation of Potential Applications of Gamma Carbonic Anhydrases as Catalysts of CO2 Biomineralization Processes: A Visit to the Thermophilic Bacteria Persephonella hydrogeniphila, Persephonella marina, Thermosulfidibacter takaii, and Thermus thermophilus. PMID:33799806
Alpha-Carbonic Anhydrases from Hydrothermal Vent Sources as Potential Carbon Dioxide Sequestration Agents: In Silico Sequence, Structure and Dynamics Analyses. PMID:33138066
Chemometric Models of Differential Amino Acids at the Navα and Navβ Interface of Mammalian Sodium Channel Isoforms. PMID:32756517
The In Silico Prediction of Hotspot Residues that Contribute to the Structural Stability of Subunit Interfaces of a Picornavirus Capsid. PMID:32244486
HMI-PRED: A Web Server for Structural Prediction of Host-Microbe Interactions Based on Interface Mimicry. PMID:32061934
Oncogenic K-Ras4B Dimerization Enhances Downstream Mitogen-activated Protein Kinase Signaling. PMID:31931009
Beyond the heterodimer model for mineralocorticoid and glucocorticoid receptor interactions in nuclei and at DNA. PMID:31923266
Methods for Discovering and Targeting Druggable Protein-Protein Interfaces and Their Application to Repurposing. PMID:30547433
PPInS: a repository of protein-protein interaction sitesbase. PMID:30127348
Arl2-Mediated Allosteric Release of Farnesylated KRas4B from Shuttling Factor PDEδ. PMID:29961325
Unraveling the molecular mechanism of interactions of the Rho GTPases Cdc42 and Rac1 with the scaffolding protein IQGAP2. PMID:29358323
Understanding Insulin Endocrinology in Decapod Crustacea: Molecular Modelling Characterization of an Insulin-Binding Protein and Insulin-Like Peptides in the Eastern Spiny Lobster, Sagmariasus verreauxi. PMID:28832524
Exploring Protein-Protein Interactions as Drug Targets for Anti-cancer Therapy with In Silico Workflows. PMID:28809006
In silico structure-based approaches to discover protein-protein interaction-targeting drugs. PMID:28802714
Enriching Traditional Protein-protein Interaction Networks with Alternative Conformations of Proteins. PMID:28775330
Small Molecules Engage Hot Spots through Cooperative Binding To Inhibit a Tight Protein-Protein Interaction. PMID:28186725
Affinity and competition for TBP are molecular determinants of gene expression noise. PMID:26832815
Computational Design of Hypothetical New Peptides Based on a Cyclotide Scaffold as HIV gp120 Inhibitor. PMID:26517259
Structural Modeling of GR Interactions with the SWI/SNF Chromatin Remodeling Complex and C/EBP. PMID:26278180
A Structural View of Negative Regulation of the Toll-like Receptor-Mediated Inflammatory Pathway. PMID:26276688
The Key Role of Calmodulin in KRAS-Driven Adenocarcinomas. PMID:26085527
Interolog interfaces in protein-protein docking. PMID:25740680
Computational survey of peptides derived from disulphide-bonded protein loops that may serve as mediators of protein-protein interactions. PMID:25231912
Prediction and redesign of protein-protein interactions. PMID:24878423
PredHS: a web server for predicting protein-protein interaction hot spots by using structural neighborhood properties. PMID:24852252
PRISM: a web server and repository for prediction of protein-protein interactions and modeling their 3D complexes. PMID:24829450
The structural pathway of interleukin 1 (IL-1) initiated signaling reveals mechanisms of oncogenic mutations and SNPs in inflammation and cancer. PMID:24550720
Non-redundant unique interface structures as templates for modeling protein interactions. PMID:24475173
Characterizing changes in the rate of protein-protein dissociation upon interface mutation using hotspot energy and organization. PMID:24039569
A compound-based computational approach for the accurate determination of hot spots. PMID:23776011
Protein interface remodeling in a chemically induced protein dimer. PMID:22733548
Analysis of hot region organization in hub proteins PubMed citations: 10.

10 articles citing: Analysis of hot region organization in hub proteins

Improve hot region prediction by analyzing different machine learning algorithms. PMID:34696728
Identification of hot regions in hub protein-protein interactions by clustering and PPRA optimization. PMID:33941163
Methods for Discovering and Targeting Druggable Protein-Protein Interfaces and Their Application to Repurposing. PMID:30547433
Mutation near the binding interfaces at α-hemoglobin stabilizing protein is highly pathogenic. PMID:27830006
Drug-Like Protein-Protein Interaction Modulators: Challenges and Opportunities for Drug Discovery and Chemical Biology. PMID:25254076
Specialized Dynamical Properties of Promiscuous Residues Revealed by Simulated Conformational Ensembles. PMID:24250278
Predicting the binding patterns of hub proteins: a study using yeast protein interaction networks. PMID:23431393
HotRegion: a database of predicted hot spot clusters. PMID:22080558
Mutations in protein-binding hot-spots on the hub protein Smad3 differentially affect its protein interactions and Smad3-regulated gene expression. PMID:21949838
Molecular recognition of H3/H4 histone tails by the tudor domains of JMJD2A: a comparative molecular dynamics simulations study. PMID:21464980
http://dx.doi.org/10.1093/nar/GKR929

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protein interaction
metasource: Fairsharing.org
version: FAIRsharing.org: HotRegion; HotRegion; DOI: https://doi.org/10.25504/FAIRsharing.m4a6d3; Last edited: Jan. 8, 2019, 1:13 p.m.; Last accessed: Jan 03 2022 7:07 p.m.

metabolic and signaling pathways
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

protein-protein interactions
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

protein folding, stability and design
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:14.330706

protein structural motifs and surfaces
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:14.330706

protein binding sites
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:14.330706

proteins
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:14.330706

structure prediction
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:14.330706

protein interaction metabolic and signaling pathways protein-protein interactions protein folding, stability and design protein structural motifs and surfaces protein binding sites proteins structure prediction

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Protein-protein interfaces

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InterEvol database : Diving into the structure and evolution of protein complex interfaces

ProtCID

Protein Protein Interaction Inhibition Database

3D interacting domains

Human Protein-Protein Interaction rEference

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Bacterial Protein Interaction Database

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