Entry search and browse
Step 1: Go to "Browse" page.
Step 2: Search the related entries by keywords, such as Protein (protein name), Nucleic acid (nucleic acid name), Method (experimental methods for the measurement of binding thermodynamic data), T (experimental condition, temperature), pH (experimental condition, pH), PMID (reference in PubMed). Click on the "ID" column in the table to browse detail information about the entry.
Entry data
(1) This panel shows the basic information about the protein, including protein name and synonyms, gene name, source organism, taxonomic, function description, amino acid sequence, and the mutation of amino acid.
(2) This panel shows the basic information about the nucleic acid, including its name, source, nucleic acid type, and nucleotide sequence.
(3) This panel shows the thermodynamic data, including the experimental conditions (such as experimental method, temperature, and pH) and the thermodynamic parameters (such as the equilibrium constant, the association and disassociation constant, the free energy and enthalpy of protein-nucleic acid interaction).
(4) External database links about the protein.
(5) The source reference of the thermodynamic data.
(6) This shows the available structure of protein-nucleic acid complex, and the interactions between protein and nucleic acid.
(7) The shows the binding preferences of each residue for DNA or RNA binding, which were calculated by the ProNA program.
(8) The shows the probability of protein binding, the expected number of proteins bound, and the probability for each nucleotide being bound by a protein, as calculated by the RBPBind program.
Glossary of terms
| Terms | Explanations | |
|---|---|---|
| Protein information | Name | Protein name |
| Synonyms | Protein synonym name | |
| Gene | Gene name | |
| Organism | Source of the protein | |
| Taxonomic | Taxonomic classification and taxonomic id of the protein | |
| Description | The main function description about the protein | |
| Sequence | Protein amino acid sequence | |
| Mutation | Amino acid mutant information | |
| Nucleic acid information | Name | Nucleic acid name |
| Source | Source of the nucleic acid | |
| Type | Nucleic acid type, such as dsDNA, ssDNA, RNA | |
| Sequence | Nucleotide sequence of the nucleic acid | |
| Complex information | PDB ID | Protein Data Bank code for the protein-nucleic acid complex | Thermodynamics information | Method | Experimental methods for the measurement of thermodynamics information |
| Temperature | Experimental condition, temperature | |
| pH | Experimental condition, pH | |
| KD | The equilibrium constant of protein-nucleic acid binding | |
| Ka | The association constant of protein-nucleic acid binding | |
| Kd | The dissociation constant of protein-nucleic acid binding | |
| ΔG | The binding free energy of protein-nucleic acid interaction | |
| ΔH | The enthalpy of protein-nucleic acid interaction | |
| External links | Cross-linked with related databases, such as UniProt, Pfam, CDD, GO, InterPro, PROSITE, SMART, and TIGRFAMs | |
| Reference | Reference PMID in PubMed | |
