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RE: Schrodinger Suites 2025-4 (Win, Linux, macOS) - oaxino - 2025-11-23

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Free Download Schrodinger Suites 2025-4 | 32.9 Gb
Owner:Schrödinger, LLC
Product Name:Schrödinger Suites
Version:2025-4 Commercial Version *
Supported Architectures:x64
Website Home Page :[URL="http://www.schrodinger.com"]www.schrodinger.com[/URL]
Languages Supported:english
System Requirements:Windows, Linux, macOs **
Size:32.9 Gb
*Notes: All workflows that rely on Desmond are not supported on Windows or Mac platforms, they can only be run on Linux. This includes Molecular Dynamics, IFD-MD, FEP+, WaterMap, and a number of Materials Science workflows. GPU machine learning applications such as Active Learning Glide and DeepAutoQSAR on GPU can only be run on Linux.
Updated: Added Schrodinger_Suites_2025-4_Documentation
The software developerSchrödingercontinuously strive to develop scientific solutions that push the boundaries of molecular design and are delighted to share enhanced drug discovery and materials workflows inSchrödinger's 2025-4software release.


Small Molecule Drug Discovery
Platform Environment
Maestro Graphical Interface
  • One-click deletion of empty project table columns: A single menu action instantly removes all empty property columns from the entire Project Table, decluttering the workspace to allow a clearer focus on relevant data.
  • "Select Entries in Table" from workspace right-click menu: Right-clicking any atom in the Workspace instantly locates and selects its corresponding entry in the Project Table, eliminating the need for manual searching in large projects.
  • Maestro Assistant (Beta) enhancements: Maestro Assistant is now more interactive with the addition of a command history, copy-to-clipboard functionality, clearer mode notifications, and a streamlined feedback system.
Binding Site & Structure Analysis
SiteMap
- SiteMap now evaluates more sites than requested, returning the requested number of top-scoring sites by SiteScore
Desmond Molecular Dynamics
- Energy Decomposition Analysis panel now supports trajectories generated using custom force field parameters
Mixed Solvent MD (MxMD)
- Addition of immiscible probes in Mixed Solvent MD to better identify cryptic pockets: Use hydrophobic probes to stabilize transiently exposed pockets in an open conformation to increase their residence time and facilitate cryptic binding site identification
Ligand Preparation
Pharmacophore Modeling
- Use 1D similarities to screen against massive virtual spaces defined combinatorically with the combinatorial_explorer workflow (command line only)
Lead Optimization
Ligand alignment
- Non macrocycle alignment jobs can run as interactive tasks without submitting a job
Enumeration
- Return only Pathfinder retrosynthetic routes that include purchasable starting materials
FEP+
- Added ligand atomic RMSF analysis for RE-FEP calculations
FEP Protocol Builder
  • Enable separate solvent and complex hot atom rules including None
  • Enable sampling between OPLS4 and OPLS5 with the new Force Field version parameter
Quantum Mechanics
  • Predict optical rotation as a function of wavelength
  • Added support for 18 new double hybrid functionals
  • Faster simulations with optimized CPU assignments for unbalanced batch jobs and workflows
  • Employ QRNN, MPNICE and UMA MLFFs from Jaguar interfaces
Medical Chemistry Design
Ligand Designer
  • Interactive Core Hopping: A new Core Swap workflow supports non-ring cores and enables true core hopping transformations, allowing for the exploration of diverse chemical space directly within an interactive design environment.
  • Manual attachment point selection for macrocyclization: The newly renamed Macrocyclization workflow allows for the interactive selection of attachment points, providing precise chemical control that focuses linker enumeration on synthetically relevant designs.
De Novo Design
- New PDF report for AutoDesigner workflows to record input settings and summarize enumeration and filtering results
Drug Formulations
Crystal Structure Prediction
- Expansion of drug formulations applicability with highly accurate Z'=2 polymorph predictions (Beta): Identify stable crystal polymorphs with updated crystal structure prediction capabilities to sample, search and rank confidently
Alternative Modalities
Bifunctional Degraders
  • Optionally build linkers between the two warheads in both directions when using the "Linkers only" option in the Generate Degrader Ternary Complexes interface
  • Prioritize ternary complexes for linker design with a new interface to score degrader ternary complexes powered by a validated Metadynamics-based workflow (beta)
Education Content
  • New Learning Path: T Cell Receptor Engineering
  • New Tutorial: Enzyme Engineering with BioLuminate
  • Updated Tutorial: Validating a Protein Free Energy Perturbation Model for Thermostability Predictions for Single Point Mutations (previously "Obtaining Protein Free Energy Perturbation Thermostability Predictions for Single Point Mutations")
  • Updated Tutorial: Improving the Thermostability of T4 Lysozyme Using Protein FEP+ Guided Design (previously "Introduction to Protein Thermostability Prediction using Protein FEP+")
  • Updated Tutorial: Ligand Binding Pose Generation for FEP+ (previously Ligand Binding Pose Prediction for FEP+ using Core-Constrained Docking)
  • Updated Tutorial: Structure-Based Virtual Screening using Glide
Biologics Drug Discovery
  • Predict T-Cell Receptor structures using TCRBuilder2 through Maestro (full release)
  • Improved ability to visualize sequences before and after CDR grafting in Antibody Humanization Panel by replacing the pop-up sequence viewer with the MSV
  • Streamlined visualization and Descriptionting of mutation results by updating the mutations chart in the residue scanning results viewer interface
  • Simpler analysis in the Residue Scanning Viewer by synchronization between chart and table
  • In MM-GBSA Residue Scanning Viewer interface choose properties to Description on both axis, eg. Description affinity on x and stability on y-axis
  • Easier setup of MM-GBSA Residue Scanning calculations through synchronization of selection between workspace and table, automatic fit-on selection, and ability to toggle visibility of select columns in property table
  • New ASPmax protein descriptor capturing the maximum average surface property for aggregation propensity prediction (command line)
GUI for Quantum ESPRESSO
Product: Quantum ESPRESSO (QE) Interface
  • (+DEFECT_FORMATION_ENERGY) Defect Correction: Workflow solution to compute the defect formation energy
  • Upgrade to Quantum ESPRESSO 7.5
  • Support for 3-body dispersion correction
  • Visualization of d-band center
  • Support for finite displacement phonon calculations
  • Reduced disk space usage for phonon calculations
  • Option to set self-consistency threshold for phonons
MS Surface
Product: MS SurfChem
  • Desorption Enumeration: Active entry shown in the workspace
  • Desorption Enumeration: Support for enumerating associate desorption products
Microkinetics
Product: MS Microkinetics
  • Option to calculate the degree of selectivity control
  • Option to Description degree of rate control per species
  • Option to set pressure schedule per species
  • Setup for transition state lateness parameter to define lateral interactions
  • Setup for adsorbate-adsorbate interactions via lateral scaling parameter
  • Support for saving and loading reaction network files
  • Support for simplified reaction entry using plain text
  • Support for loading a microkinetic model from a workspace entry
  • Support for Descriptionting x-axis in log scale from the viewer panel
  • User control over absolute and relative error tolerances
  • Number of unphysical MKM steps displayed in viewer panel
Reactivity
Product: MS Reactivity
  • Nanoreactor: Option to set spin for the final state of elementary reactions
  • Nanoreactor: Refined setup for metadynamics cavity radius scaled from 0.1 to 1.0
  • Nanoreactor: Product chemistry filtered by refined DFT or MLFF
  • Nanoreactor: Reactant energy marked in the elementary reaction network mode
  • Nanoreactor: Support for MLFF (UMA) energy refinement for open shell systems
  • Reaction Network Profiler: Option to sort conformers from refined energy
Advanced Force Field Applications
Product: MS FF Applications
  • Expanded support for MLFF selections in QM- and MD-based workflow solutions
  • UMA (developed by Meta Platforms Inc.) added as MLFF option in QM-based workflows
  • (+ENABLE_GRPC_MLFF_DESMOND) UMA (developed by Meta Platforms Inc.) added as MLFF option in MD-based workflows
Transport Calculations via MD simulations
Product: MS Transport
  • Ionic Conductivity: Workflow solution to predict ionic conductivity in liquid electrolyte systems
  • Viscosity: Option to turn off the SHAKE algorithm (command line)
  • Viscosity: Support for MLFF
Coarse-Grained (CG) Molecular Dynamics
Product: MS CG
  • Coarse-grained Mapping: Consistent, reusable names for sugar particles
  • Coarse-grained Mapping: Improved restraint visualization
  • Coarse-grained Mapping: MARTINI mapping of proteins
  • Coarse-grained Mapping: MARTINI mapping of monosaccharides
  • Coarse-grained Mapping: MARTINI mapping of cholesterol
  • Coarse-grained Mapping: All-atom CMS created as input for CG FF Builder
  • Coarse-Grained Mapping: Enhanced precision for SMARTS patterns to improve mapping and force field parameter reusability
  • Coarse-Grained Mapping: Improved UX for the reuse of existing particle types
  • Coarse-Grained Mapping: Visualization of the mapped system in the workspace
  • Coarse-Grained Mapping: Use of antifreeze water molecules set by default
  • CG FF Builder: NpT set as the default ensemble for MARTINI simulations
  • CG FF Builder: Option to keep proteins rigid during the model building stage
  • CG FF Builder: Option to set the masses to standard MARTINI particle types
  • CG FF Builder: Mapping of a small ion-water cluster to a single MARTINI particle
  • CG FF Builder: Support for the reuse of CG particle types with identical names
  • CG FF Builder: Support for loading CG mapping output as input
Complex Bilayer Builder
Product: MS Complex Bilayer Builder
  • Complex Bilayer: Model building solution for complex / multi-component bilayers of molecular materials including protein-based membranes
  • Membrane Analysis: Workflow solution to analyze membrane structural features
Formulation ML
Product: MS Formulation ML
  • Formulation ML: Support for parallel training and predictions of multiple models
  • Formulation ML Optimization: Improved UX for loading models
  • Formulation ML Optimization: Option to select random optimization for models
  • Formulation ML Optimization: Option to stop optimization prior to convergence
  • Formulation ML Optimization: Option for cost optimization
  • Formulation ML Optimization: Support for composition constraints with Bayesian optimization
  • ML Model Manager: Option to export and update descriptors for ingredients
  • ML Model Manager: Automatic selection for the newly loaded model
  • ML Model Manager: Access for model names to be edited by user
  • ML Model Manager: Option to estimate MPO scores on model predictions
Layered Device ML
Product: MS Layered Device ML
  • OLED Device ML: Advanced options for model training
  • OLED Device ML: Option to export the training set data
  • OLED Device ML: Support for parallel training and predictions of multiple models
  • OLED Device ML: Option to use molecular model predictions as descriptors
MS Maestro User Interface
  • Maestro: Job Monitor to display the cause of failures for failed jobs
  • Maestro: Ribbon style enabled in the workspace for protein representations
MS Maestro Builders and Tools
  • Complex Builder: Option to turn on/off IUPAC name assignment for ligands
  • Complex Builder: Support for building dimers with an atom bridging two metals
  • Disordered System: Preservation of protein residue information by default
  • Disordered System: Option to set the system size by the total number of atoms
  • Materials Science Panel Explorer: GUI to search and list panels by the application, method, chemistry, and product of interest
  • Meta Workflows: Matched settings for the Brownie stage with the MD Multistage
  • Optoelectronic Device Designer: Option to import materials data from a file
  • Optoelectronic Device Designer: Option to export materials and device data
  • Optoelectronic Device Designer: Option to remove materials from the database
  • Optoelectronic Device Designer: Description for numerical energy levels
  • Optoelectronic Device Designer: Description for numerical layer thicknesses
  • Solvate System: Option to specify particle radii for coarse-grained models
  • Solvate System, Structured Liquid GUI: (+MATSCI_PACKMOL_PBC) Periodic boundary conditions retained when building structures
Classical Mechanics
  • Cluster Analysis: (+CLUSTER_DENSITY_PROFILE) Radial density profile for clusters
  • Evaporation: Support for MLFF
  • Evaporation: Setup for evaporation zone in radial distance from center of mass
  • Polymer Crosslink: (+POLYMER_CROSSLINK_MODES) Option to select fast crosslinking mode
  • Thin Plane Shear: Support for MLFF
  • Thin Plane Shear: Option to use custom MLFF
  • Umbrella Sampling: User control over potential of mean force (PMF) calculations
  • Umbrella Sampling: Visualization of probability distribution overlap matrix
  • Visualize Restraints: Visualization of multiple restraints
Quantum Mechanics
  • Adsorption Site Finder: Support for MLFF
  • Bond and Ligand Dissociation: Support for MLFF
  • QM Multistage: Support for MLFF selection on the Theory tab
  • Optoelectronic Film Properties: Advanced transition dipole moment analysis with distributions over angle, distance, and depth
  • Probe Grid Scan: VdW radius used as atomic radius for metal atoms
  • Probe Grid Scan: Support for scanning open shell systems using MLFF (UMA)
Education Content
  • New Tutorial: Simulating Complex Protein Solutions
  • New Tutorial: Creating a Coarse-Grained Model for Protein Formulations
  • New Tutorial: Building and Analyzing a Complex Lipid Bilayer and Embedding a Membrane Protein
  • New Tutorial: Ionic Conductivity
  • New Tutorial: Optimizing Viscosity and Cost in Formulations with Missing Structural Data
  • New Tutorial: Locating Adsorption Sites on Surfaces
  • Updated Tutorial: Atomic Layer Deposition
  • Updated Tutorial: Microkinetic Modeling
  • Quick Reference Sheet: Materials Science Panel Explorer
Education Content
Life Science
  • New Learning Path: T Cell Receptor Engineering
  • New Tutorial: Enzyme Engineering with BioLuminate
  • Updated Tutorial: Validating a Protein Free Energy Perturbation Model for Thermostability Predictions for Single Point Mutations (previously "Obtaining Protein Free Energy Perturbation Thermostability Predictions for Single Point Mutations")
  • Updated Tutorial: Improving the Thermostability of T4 Lysozyme Using Protein FEP+ Guided Design (previously "Introduction to Protein Thermostability Prediction using Protein FEP+")
  • Updated Tutorial: Ligand Binding Pose Generation for FEP+ (previously Ligand Binding Pose Prediction for FEP+ using Core-Constrained Docking)
  • Updated Tutorial: Structure-Based Virtual Screening using Glide
Materials Science
  • New Tutorial: Simulating Complex Protein Solutions
  • New Tutorial: Creating a Coarse-Grained Model for Protein Formulations
  • New Tutorial: Building and Analyzing a Complex Lipid Bilayer and Embedding a Membrane Protein
  • New Tutorial: Ionic Conductivity
  • New Tutorial: Optimizing Viscosity and Cost in Formulations with Missing Structural Data
  • New Tutorial: Locating Adsorption Sites on Surfaces
  • Updated Tutorial: Atomic Layer Deposition
  • Updated Tutorial: Microkinetic Modeling
  • Quick Reference Sheet: Materials Science Panel Explorer
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Schrödinger Softwareprovide accurate, reliable, and high performance computational technology to solve real-world problems in life science research. It can be used to build, edit, run and analyse molecules. The Schrödinger-Suite of applications have a graphical user interface called Maestro. Using the Maestro you can prepare your structure for refinement. The following products are available: CombiClide, ConfGen, Core Hopping, Desmond, Epik, Glide, Glide, Impact, Jaguar ( high-performance ab initio package), Liaison, LigPrep, MacroModel, MCPRO+, Phase, Prime, PrimeX, QikProp, QSite, Semi-Empirical, SiteMap, and Strike.
Schrödinger Release 2025-4 | Life Science - New Features
Schrödinger Release 2025-4 | Materials Science - New Features
Schrödinger, LLCprovides scientific software solutions and services for life sciences and materials research, as well as academic, government, and non-profit institutions around the world. It offers small-molecule drug discovery, biologics, materials science, and discovery informatics solutions; and PyMOL, a 3D molecular visualization solution. The company was founded in 1990 and is based in Portland, Oregon with operations in the United States, Europe, Japan, and India.

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