Tag: nucleic acid structure analysis

The Nucleic Acids Database contains information about experimentally-determined nucleic acids and complex assemblies. NDB can be used to perform searches based on annotations relating to sequence, structure and function, and to download, analyze, and ...

LncBook is a curated knowledgebase of human lncRNAs that features a comprehensive collection of human lncRNAs and systematic curation of lncRNAs by multi-omics data integration, functional annotation and disease association. It integrates multi-omics ...

INDIGO enables the integration of annotations for the exploration and analysis of newly sequenced microbial genomes.

Predicted structures of internal transcribed spacer 2 (ITS2)

The RNA Modification Database contains information pertaining to naturally occurring RNA modifications. The database employs an easy-to-use, searchable interface for obtaining detailed data on the 109 currently known RNA modifications. Each entry pro ...

MINAS contains the exact geometric information on the first and second-shell coordinating ligands of every metal ion present in nucleic acid structures that are deposited in the PDB and NDB. Containing also the sequence information of the binding poc ...

Nearest Neighbor parameters for predicting RNA folding

RNA Characterization of Secondary Structure Motifs (RNA CoSSMos) database allows the systematic searching of all catalogued three-dimensional nucleic acid PDB structures that contain secondary structure motifs such as mismatches, (a)symmetric interna ...

NAPP (Nucleic Acids Phylogenetic Profile) enables users to retrieve RNA-rich clusters from any genome in a list of 1000+ sequenced bacterial genomes. RNA-rich clusters can be viewed separately or, alternatively, all tiles from RNA-rich clusters can b ...

The Therapeutic Structural Antibody Database tracks all antibody- and nanobody-related therapeutics recognized by the World Health Organisation (WHO), and identifies any corresponding structures in the Structural Antibody Database (SAbDab) with near- ...

Database designed to provide a comprehensive perspective and understanding of RNA motif structure, function, tertiary interactions and their relationships.

The Database of Macromolecular Movements (MolMovDB) contains a collection of animated protein and RNA structures to assist in the exploration of macromolecular flexibility. Software for structure analysis is also available.

rPredictorDB is a predictive database of secondary structures of individual RNAs and their formatted plots.

Integrates information on RNA helicases. The database allows retrieval of comprehensive information on sequence, structure and on biochemical and cellular functions of all RNA helicases from the most widely used model organisms Escherichia coli, Sacc ...

An expanded database and web-based tool for structural analysis of DNA-protein complexes. A Database and Web Tool for Structural Analysis of DNA-Protein Complexes. DNAproDB automatically lays out nucleotide and residue interactions maps elegantly. ...

Tree-Based Alignment Selector toolkit for phylogenetic-based placement, alignment downloads and metadata visualization.

Database for binding affinities of protein-nucleic acid complexes and their mutants.

An intuitive database of RNA pocket topology information with RNA-ligand data resources.

A database of genus characteristics of proteins and RNA. A database of genus characteristics. The Genus database collects information about topological structure and complexity of proteins and RNA chains, which is captured by the genus of a given c ...

Experimental coronavirus protein structures

Database for dinucleotide properties

Molecular Modeling of RNA Structure-From Base Pair Analysis in Crystals to Structure Prediction.

A database of RNA multiloops.

A database of ribozymes.

RNA aptamer 3D-structural modeling database.

A repository of cleaned PDB-derived RNA 3D structures.

Exploration and analysis of R-loop mapping data with RLBase.

Provides simple-to-use REST web services to query/retrieve variant annotation data, aggregated from many popular data resources.

Devoted to the characterization of complete chromosome sequences by standardized genometric methods, this website displays for sequenced genomes, three different genometric analyses: the DNA walk and the GC and TA skews during the initial phase. Alth ...

CoDNaS-RNA is a database of the Conformational Diversity in the Native State of RNA molecules. Each entry in CoDNaS-RNA is a redundant collection of known structures of the same RNA molecule, which can be considered as alternative instances of the RN ...