RNA

  RNA sequence database

• MARS-00  MARS-01  MARS-02  MARS-03  MARS-04  MARS-05  MARS-06  MARS-07  MARS-08  MARS-09

  RNA homology search

      RNA cmap3 (example 1, example 2)

  RNA Temperature adaptation dataset

• RNA Temperature adaptation

  RNA Structure Prediction

• RNAsnap: RNA solvent accessibility prediction from sequence

• BRiQ_predictedModels

• RNA-BRiQ-data

• bp-RNA（for SPOT-RNA）

• SPOT-RNA-1D Torsion-Angle Prediction Dataset

Protein

  Protein Structure Prediction

• OSCAR-Design

   Protein Domain Parser

    DDomain

  Protein 3D Structure Prediction

• SPARKS-x: Fold Recognition

  Protein Local Structural Prediction

• SPOT-Contact: Sequence-based contact map prediction

• SPOT-1D: Latest method On sequence-based prediction of structural features for proteins

• SPIDER3-Single (Numpy): Single-sequence-based prediction of structural features for proteins

• SPOT-Disorder2: Sequence-based prediction of intrinsically disordered proteins: V2.0

• SPOT-Disorder-Single: Single sequence-based prediction of intrinsically disordered proteins

• SPOT-Contact-LM: Improving single-sequence-based prediction of protein contact map using a transformer language model

• SPOT-Contact-LM's files

• SPOT-1D-Single's files

• SPOT-1D-LM's files

  Older versions, please use SPOT-1D instead. Links are provided for reference:

• SPIDER3: Sequence-based prediction of structural features for proteins

• SPOT-Disorder: Sequence-based prediction of intrinsically disordered proteins

• SPIDER2: Predicting secondary structure, local backbone angles, and ASA of proteins

• SPINE-D: Protein disorder prediction

• SPIDER-HSE: HSE (alpha/beta) prediction from protein sequence

• SPIDER2 (including HSE): Predicting secondary structure, local backbone angles, ASA, and [HSE] of proteins

• SPINE-X: Protein secondary Structure Prediction

  DFIRE, Knowledge-based potential function

• dDFIRE: Calculating Conformational Free Energy

• DFIRE2 source code

• DFIRE2 executable

• DFIRE-RNA source code (Github)

  Protein Structure Alignment

• SPalign: Structure Alignment Program (source code)

• SPalignNS: Non-sequential Structure Alignment Program (source code)

  Protein Function Prediction

• DDNA3: Protein-DNA interaction energy

• SPOT-Struct-RNA: RNA protein prediction from Structure

• SPOT-Seq-RNA: RNA protein prediction from Sequence

• SPOT-MoRF: MoRF prediction by transfer learning

• Protein-Glycan binding

• DDIG for synonymous mutations, frameshifting indels and nonsense variants

• EASE-MM: Sequence-Based Prediction of Mutation-Induced Stability Changes with Feature-Based Multiple Models