# GL1X - GenesisL1 explorer

> The block explorer of GenesisL1, a Cosmos SDK chain with an EVM (chain id 29, coin L1). It shows the ledger, tokens, NFTs, validators and governance, and runs GenesisL1's dapps in the browser: on-chain molecular records with BLAST over every MolNFT sequence (NCBI BLAST+ compatible, with proofs from the chain and IPFS) and structure alignment and search over their 3D structures (TM-align, GSA structural alphabet), GL1F machine-learning models, GL1F Crypto AI models and chess against a neural network stored in a contract. Every feature is also available to AI agents over MCP.

## For AI agents

- [MCP server](https://gl1x.com/mcp): Model Context Protocol over Streamable HTTP with 87 tools, from ledger search to playing chess; read-only, nothing is signed or sent
- [Connecting an agent](https://gl1x.com/dapps/mcp): the endpoint, client set-up and a tool playground
- [API reference](https://gl1x.com/api-reference): every JSON route, with examples
- [Full list of tools and routes](https://gl1x.com/llms-full.txt)

## Documentation

Each page as Markdown; the same pages are MCP resources (gl1x://docs/{slug}), searchable at https://gl1x.com/api/docs/search?q=…, and readable at https://gl1x.com/docs.

- [GL1X documentation](https://gl1x.com/docs/index.md): What GL1X is, what it does for people, agents and scientists, and where each part is documented
- [Architecture](https://gl1x.com/docs/architecture.md): One Go binary and PostgreSQL: indexers, caches, the API layers, the MCP server, the scientific services, nginx and scale-out
- [MCP: the explorer as tools for agents and LLMs](https://gl1x.com/docs/mcp.md): The Model Context Protocol server built into the explorer: transport, every tool, resources, prompts, limits, client set-up and agent workflows
- [API reference guide](https://gl1x.com/docs/api.md): The unified explorer API, the Blockscout and Etherscan compatible APIs, JSON-RPC, and the molecular, structure, feature and dataset routes
- [MolNFT on GenesisL1](https://gl1x.com/docs/molnft.md): Molecular records as NFTs (v1 on IPFS, v2 on chain): how GL1X discovers, reads, indexes and proves them
- [Bioinformatics onchain](https://gl1x.com/docs/bioinformatics.md): The research suite over every MolNFT record and its workflows: search, BLAST, structure alignment and search, ligands, the research workbench, pockets, proteomics, families and variants, features, datasets and proofs
- [BLAST engine](https://gl1x.com/docs/blast.md): NCBI BLAST+ 2.12.0 compatible blastp, blastn, blastx, tblastn and tblastx over every MolNFT sequence: algorithms, statistics, validation, speed
- [Structure alignment, GSA and structure search](https://gl1x.com/docs/structures.md): Structure readers, the TM-align port, GSA (the GL1X structural alphabet), the search pipeline, benchmarks, motif search of the structures and precomputed comparisons
- [Ligand index](https://gl1x.com/docs/ligands.md): Every non-polymer group of every MolNFT structure with the residues of its binding site: what a ligand is, classes, chemical components, search by component, name, formula and protein, the API and MCP
- [Structure analysis](https://gl1x.com/docs/analysis.md): Secondary structure (DSSP), accessibility, interfaces, pockets with druggability, side-chain points and base pairs of every structure; secondary-structure patterns and 3D templates searched across the archive
- [pH environments](https://gl1x.com/docs/ph.md): Every ionizable group's pKa from the structure, its charge in the stomach, intestine, blood and cell compartments, isoelectric point, stability over pH, membrane sides; the model and how it was checked
- [Proteomics](https://gl1x.com/docs/proteomics.md): Masses, digestion and proteotypic peptides, isotope patterns, spectrum identification with FDR, observed and predicted modifications, crosslinks by surface distance, HDX/LiP on structures, virtual gels
- [Families, evolution and variants](https://gl1x.com/docs/families.md): Multiple alignment, conservation, trees, direct coupling analysis, clustering, profile HMM search, sequence annotation, annotation transfer, variants and mutational effects with GL1F models
- [PubMed search and topic clustering](https://gl1x.com/docs/pubmed.md): PubMed read as a map of topics clustered in the browser (Lingo, STC, k-means; an organic treemap); every structure's literature found from its title and PDB ID; the API and MCP
- [Broccoli: topic maps in the browser](https://gl1x.com/docs/broccoli.md): The MIT library behind PubMed search: text processing, the Lingo, STC and k-means clustering, the organic treemap, bubbles, radial and florets maps, colours, embedding and limits
- [Molecular features reference](https://gl1x.com/docs/features.md): Every feature of the protein, nucleotide and structure sets: definition, unit, formula and reference
- [Machine-learning datasets](https://gl1x.com/docs/datasets.md): Datasets from BLAST, structure and molecular search hits or lists of records: columns, formats and GL1F model inputs
- [Names and identifiers](https://gl1x.com/docs/nomenclature.md): Which standard names each thing in GL1X (PDB chemical components, UniProt, PDB IDs, Unimod, IUPAC), where display names come from, and every lookup table GL1X keeps, in full
- [GL1F models on GenesisL1](https://gl1x.com/docs/gl1f.md): Decision-tree models stored as NFTs, run on chain and verified, and how molecular datasets become their inputs
- [CIPNFT: encrypted NFTs](https://gl1x.com/docs/cipnft.md): Encrypted intellectual-property NFTs on GenesisL1: listing them, and opening a token's content with its view key in the browser
- [Operations](https://gl1x.com/docs/operations.md): Install, configure, size, scale out, upgrade and monitor a GL1X server
- [Admin guide](https://gl1x.com/docs/admin.md): Every tab of the admin page, including Bio, and what its numbers mean
- [Papers](https://gl1x.com/docs/papers.md): Papers on GL1X and GenesisL1: the MCP-native explorer, decentralized bioinformatics, a pKa benchmark, GL1F on-chain models, chess inference in the EVM and CIPNFT
- [GL1X: an MCP-native blockchain explorer](https://gl1x.com/docs/paper-mcp.md): Paper: exposing a whole Layer-1 explorer, its dapps and its scientific services to AI agents through the Model Context Protocol
- [Decentralized bioinformatics over MolNFT records](https://gl1x.com/docs/paper-bioinformatics.md): Paper: verifiable sequence and structure search, the GSA structural alphabet, molecular features and datasets on GenesisL1
- [GL1X pKa values against experiment](https://gl1x.com/docs/paper-pka.md): Paper: GL1X's structure-based pKa values benchmarked on 365 measured values in 47 proteins against a null model, by residue type, shift and structure
- [GL1F: reproducible integer tree-ensemble inference on the EVM](https://gl1x.com/docs/paper-gl1f.md): Paper (PDF): when an on-chain tree-ensemble model is exactly the function it claims, with identical trainers, gas costs and a replay of GenesisL1's models
- [Neural-policy chess inference inside the EVM](https://gl1x.com/docs/paper-chess.md): Paper (PDF): a chess policy network executed by the EVM on GenesisL1, its 4,672-move space and legal-move mask, and a template for on-chain scientific ML
- [CIPNFT: encrypted NFTs for confidential intellectual property](https://gl1x.com/docs/paper-cipnft.md): Whitepaper (PDF): NFTs with metadata encrypted on chain, classic and post-quantum key envelopes, view keys and a buyer-safe two-phase sale
- [License](https://gl1x.com/docs/license.md): MIT License, the two copyright holders and the third-party parts

## Pages

- [Overview: latest blocks and transactions, supply, price and chain health](https://gl1x.com/)
- [Blocks](https://gl1x.com/blocks)
- [Transactions, EVM and Cosmos SDK](https://gl1x.com/transactions)
- [Top accounts by balance](https://gl1x.com/accounts)
- [Tokens and NFT collections](https://gl1x.com/tokens)
- [Verified contracts](https://gl1x.com/contracts)
- [Validators](https://gl1x.com/validators)
- [Governance proposals](https://gl1x.com/governance)
- [Community pool](https://gl1x.com/community-pool)
- [Molecular search across MolNFT records (PDB IDs, accessions, titles, sequences, motifs such as QEEY or motif:[QR]EEY)](https://gl1x.com/bio/search)
- [BLAST (blastp, blastn, blastx, tblastn, tblastx) against every MolNFT sequence, with alignments, E-values and proofs](https://gl1x.com/bio/blast)
- [Structure search: TM-align superposition of two MolNFT structures, and search of every indexed protein chain for similar structures (GSA, the GL1X structural alphabet, then TM-score)](https://gl1x.com/bio/structure)
- [Ligand index: every ligand of the MolNFT structures (cofactors, drugs, metal ions, sugars) by component, name or formula, the ligands of a protein by UniProt accession, and each binding site with its residues within 4.5 Å and its occupancy](https://gl1x.com/bio/ligands)
- [Bioinformatics onchain: every research tool of the explorer, by what it answers, and the archive's totals](https://gl1x.com/bio)
- [Research workbench: one MolNFT structure with every tool beside it (secondary structure, accessibility, half-sphere exposure, contact map, base pairs, pockets, interfaces, conservation and couplings, variants and ΔΔG, modifications, peptides and HDX, crosslinks, sequence annotation, structural neighbours, pH environments), each painted on the 3D model](https://gl1x.com/bio/workbench)
- [Pockets of every structure by volume, buriedness, hydrophobicity and druggability, occupied or empty, within one biological assembly or not](https://gl1x.com/bio/pockets)
- [Chain interfaces of every structure: buried surface, hydrogen bonds, salt bridges, residues of both sides, and whether a biological assembly holds both chains (or a crystal contact)](https://gl1x.com/bio/interfaces)
- [Secondary-structure patterns (β-hairpins, β-α-β, helix–turn–helix, regular expressions over DSSP states)](https://gl1x.com/bio/ss-patterns)
- [3D templates: residues in a given arrangement (catalytic triads, zinc and metal sites, sites taken from a structure)](https://gl1x.com/bio/templates)
- [Observed modifications: modified residues, disulfides, glycans, lipids, covalent groups](https://gl1x.com/bio/ptms)
- [Proteomics: digestion with proteotypic peptides across the archive, peptide masses, fragments and isotope patterns, MS/MS annotation and MGF searches with target–decoy FDR, virtual 2D gel](https://gl1x.com/bio/proteomics)
- [Families and evolution: multiple alignment with Jensen–Shannon conservation and trees, direct coupling analysis, clustering, profile-HMM search, sequence annotation](https://gl1x.com/bio/families)
- [Dataset creation: machine-learning datasets from BLAST, structure or metadata search hits, or hand-picked MolNFT records with values of your own (CSV, TSV, JSON, GL1F inputs)](https://gl1x.com/bio/datasets)
- [PubMed search: the biomedical literature searched in PubMed's syntax and up to 2,000 records clustered into a zoomable map of topics (organic treemap, bubbles, radial map, florets); every structure links here with its PDB ID and its title, digested into the search that finds its literature](https://gl1x.com/bio/pubmed)
- [GL1F models: decision-tree ensembles stored as NFTs, runnable on chain](https://gl1x.com/gl1f)
- [GL1F Crypto models: market questions answered for the latest completed candle](https://gl1x.com/gl1f/crypto)
- [CIPNFT: encrypted intellectual-property NFTs, their content opened with a view key in the browser](https://gl1x.com/dapps/cipnft)
- [Chess against GenesisL1's on-chain policy network](https://gl1x.com/dapps/chess)
- [All dapps](https://gl1x.com/dapps)
- [Documentation: architecture, MCP, APIs, MolNFT, BLAST, structures, ligands, structure analysis, pH environments, proteomics, families, PubMed and Broccoli, features, datasets, names and identifiers, GL1F, operations, papers](https://gl1x.com/docs)

## URL patterns

- Transaction: https://gl1x.com/tx/{hash}
- Block: https://gl1x.com/block/{height}
- Account: https://gl1x.com/address/{0x… or genesis1…}
- Token: https://gl1x.com/token/{contract}; NFT: https://gl1x.com/token/{contract}/instance/{id}
- Validator: https://gl1x.com/validator/{genesisvaloper…}; proposal: https://gl1x.com/proposal/{id}
- GL1F model: https://gl1x.com/gl1f/forest/{id}; GL1F Crypto model: https://gl1x.com/gl1f/crypto/{id}
- CIPNFT token: https://gl1x.com/dapps/cipnft/{id}
- Structure alignment: https://gl1x.com/bio/structure?a={contract}:{token}:{chain}&b={contract}:{token}:{chain}&run=1; structure search: https://gl1x.com/bio/structure?tab=search&q={contract}:{token}:{chain}&run=1
- Ligands: https://gl1x.com/bio/ligands?q={id, name or formula}; the ligands of a protein: https://gl1x.com/bio/ligands?accession={UniProt}; a ligand's binding sites: https://gl1x.com/bio/ligands/{component id}; a ligand shown in its structure: https://gl1x.com/token/{contract}/instance/{id}?ligand={component}:{chain}:{number}
- Protein: https://gl1x.com/bio/protein/{UniProt accession}: every structure of the protein, experimental and predicted, the ligands its chains bind, its pockets, experiment against prediction
- Research workbench: https://gl1x.com/bio/workbench/{contract}/{id}?tool={structure|pockets|interfaces|conservation|variants|ptm|peptides|crosslinks|annotation|neighbours|ph}&chain={chain}; residues highlighted: &residues=57,102,195 or &residues=10-24; a pocket: &tool=pockets&pocket={rank}; an interface: &tool=interfaces&chains=A,B
- Proteomics tools: https://gl1x.com/bio/proteomics, https://gl1x.com/bio/proteomics/peptide?peptide={PEPM[Oxidation]K}, https://gl1x.com/bio/proteomics/spectra, https://gl1x.com/bio/proteomics/gel; family tools: https://gl1x.com/bio/families, https://gl1x.com/bio/families/{dca|cluster|hmm|annotation}
- PubMed search: https://gl1x.com/bio/pubmed#q={PubMed query}; a structure's literature by its title: https://gl1x.com/bio/pubmed#title={title} (the digest: https://gl1x.com/api/bio/pubmed/digest?title={title})