All tools

Calculate the aliphatic index of protein sequences to assess thermostability

Fetch AlphaFold DB CIF, PDB, BCIF, and PAE JSON files from a UniProt accession.

Calculate the percentage and frequency of each amino acid in protein sequences

Fetch ChEMBL compound structure and metadata files by ChEMBL molecule ID.

Identify CpG-rich DNA regions using GC content, CpG density, and observed-to-expected ratios.

Convert CSV or TSV sequence tables to FASTA with automatic delimiter detection and column mapping.

Calculate insert mass and molar ratio, then turn DNA stock concentrations into a practical ligation pipetting plan.

Mutate DNA online by exact count or mutation rate, with reproducible controls and FASTA export.

Shuffle DNA sequences while preserving nucleotide, dinucleotide, or k-mer composition.

Translate DNA sequences into proteins across reading frames and genetic code tables.

Convert coding-strand DNA to RNA notation by replacing thymine with uracil.

Generate random DNA sequences with controlled length, GC content, and restriction sites.

Calculate the molar extinction coefficient at 280 nm and convert an A280 reading into protein concentration.

Paste or upload a sequence file in any common format and download FASTA. The format is detected automatically, and nothing leaves your browser.

Split FASTA records by count, target file count, record length, or one sequence per file.

Paste or upload FASTA and download a CSV or TSV table for spreadsheets, or a plain text file with one sequence per line.

Convert FASTA sequences to FASTQ with configurable mock Phred quality scores.

Convert FASTQ sequencing reads to FASTA while preserving headers and sequence case by default.

Clean DNA sequences by removing or replacing non-standard nucleotides with IUPAC-aware filters.

Clean protein sequences by removing or replacing non-standard amino acids with configurable filters.

Match experimental masses to theoretical protein digest fragments for peptide mass fingerprinting.

Calculate GC content, AT content, GC/AT skew, melting temperature, and CpG islands for DNA or RNA, with a sliding-window GC plot.

Extract CDS, mRNA, gene, rRNA, and tRNA features from GenBank records into FASTA.

Convert GenBank records to FASTA by extracting primary sequences, CDS, or translations.

Find potential N-linked glycosylation sites (NX[S/T] sequons) in protein sequences.

Calculate mean Kyte-Doolittle hydropathy and compare protein sequences.

Generate hydropathy plots to visualize hydrophobic/hydrophilic regions along protein sequences using sliding window analysis.

Explore local protein hydrophobicity with 24 amino acid scales, including Eisenberg and Hopp-Woods, and an adjustable sliding window.

Calculate dipeptide-based instability scores and predicted stability for protein sequences.

Convert one-letter amino acid sequences to three-letter codes with customizable formatting.

Run Open Babel online with molecular format conversion, coordinate generation, and hydrogen options.

Design overlapping peptide libraries with adjustable length, overlap and terminal restrictions. Runs in your browser.

Fetch experimental structure files from RCSB PDB or PDBe using a PDB ID.

Convert PDB coordinates to mmCIF with model selection and warnings for omitted records.

Extract observed or full SEQRES sequences from PDB structures with chain selection and RCSB fetching.

Convert PDB structures up to 20,000 atoms with Open Babel and clear chemistry caveats.

Map protease and chemical cleavage sites across protein sequences for proteomics experiment planning.

Digest a protein in silico and list peptide masses and ion m/z values for mass spectrometry.

Calculate the theoretical isoelectric point (pI) - the pH at which a protein has no net charge.

Plot net charge vs pH to visualize protein charge behavior and identify the isoelectric point.

Calculate the molecular weight of a protein or peptide sequence in Da and kDa.

Scan protein sequences for glycosylation, phosphorylation, localization signals, and other biologically important motifs.

Plot amino acid property profiles using 42 scales for hydrophobicity, flexibility, secondary structure propensity, antigenicity, and more.

Reverse translate protein sequences into DNA with codon optimization and GC-content controls.

Generate random protein sequences with controlled length, amino acid composition, and motifs.

Fetch downloadable PubChem compound files and identifiers from a CID, compound name, or InChIKey.

Calculate the radius of gyration (Rg) for protein structures from PDB files.

Analyze protein backbone phi/psi angles and classify favored, allowed, and outlier residues.

Generate reverse, complement, or reverse-complement sequences from raw, FASTA, or FASTQ DNA and RNA input.

Fetch Rhea reaction RDF files and reaction metadata from Rhea IDs.

Calculate RMSD between protein structures with automatic alignment

Replace U with T while keeping the same strand orientation. Paste RNA or upload a sequence file.

Generate random RNA test sequences with adjustable GC content and optional RNA-like templates and sequence motifs.

Calculate solvent accessible surface area for protein structures

Convert SDF or MOL structures to PDB with connectivity records, headers, and chain assignments.

Convert three-letter amino acid codes (Ala, Arg) to single-letter format (A, R)

Paste or upload DNA, RNA, or protein text and download FASTA. Sequence names, wrapped lines, and tables are detected automatically, and nothing leaves your browser.

Fetch UniProt protein sequence files, JSON records, and available sequence content by accession.