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+# UniProt ID Mapping Databases
+
+Complete list of databases supported by the UniProt ID Mapping service. Use these database names when calling the ID mapping API.
+
+## Retrieving Database List Programmatically
+
+```python
+import requests
+response = requests.get("https://rest.uniprot.org/configure/idmapping/fields")
+databases = response.json()
+```
+
+## UniProt Databases
+
+### UniProtKB
+- `UniProtKB_AC-ID` - UniProt accession and ID
+- `UniProtKB` - UniProt Knowledgebase
+- `UniProtKB-Swiss-Prot` - Reviewed (Swiss-Prot)
+- `UniProtKB-TrEMBL` - Unreviewed (TrEMBL)
+- `UniParc` - UniProt Archive
+- `UniRef50` - UniRef 50% identity clusters
+- `UniRef90` - UniRef 90% identity clusters
+- `UniRef100` - UniRef 100% identity clusters
+
+## Sequence Databases
+
+### Nucleotide Sequence
+- `EMBL` - EMBL/GenBank/DDBJ
+- `EMBL-CDS` - EMBL coding sequences
+- `RefSeq_Nucleotide` - RefSeq nucleotide sequences
+- `CCDS` - Consensus CDS
+
+### Protein Sequence
+- `RefSeq_Protein` - RefSeq protein sequences
+- `PIR` - Protein Information Resource
+
+## Gene Databases
+
+- `GeneID` - Entrez Gene
+- `Gene_Name` - Gene name
+- `Gene_Synonym` - Gene synonym
+- `Gene_OrderedLocusName` - Ordered locus name
+- `Gene_ORFName` - ORF name
+
+## Genome Databases
+
+### General
+- `Ensembl` - Ensembl
+- `EnsemblGenomes` - Ensembl Genomes
+- `EnsemblGenomes_PRO` - Ensembl Genomes protein
+- `EnsemblGenomes_TRS` - Ensembl Genomes transcript
+- `Ensembl_PRO` - Ensembl protein
+- `Ensembl_TRS` - Ensembl transcript
+
+### Organism-Specific
+- `KEGG` - KEGG Genes
+- `PATRIC` - PATRIC
+- `UCSC` - UCSC Genome Browser
+- `VectorBase` - VectorBase
+- `WBParaSite` - WormBase ParaSite
+
+## Structure Databases
+
+- `PDB` - Protein Data Bank
+- `AlphaFoldDB` - AlphaFold Database
+- `BMRB` - Biological Magnetic Resonance Data Bank
+- `PDBsum` - PDB summary
+- `SASBDB` - Small Angle Scattering Biological Data Bank
+- `SMR` - SWISS-MODEL Repository
+
+## Protein Family and Domain Databases
+
+- `InterPro` - InterPro
+- `Pfam` - Pfam protein families
+- `PROSITE` - PROSITE
+- `SMART` - SMART domains
+- `CDD` - Conserved Domain Database
+- `HAMAP` - HAMAP
+- `PANTHER` - PANTHER
+- `PRINTS` - PRINTS
+- `ProDom` - ProDom
+- `SFLD` - Structure-Function Linkage Database
+- `SUPFAM` - SUPERFAMILY
+- `TIGRFAMs` - TIGRFAMs
+
+## Organism-Specific Databases
+
+### Model Organisms
+- `MGI` - Mouse Genome Informatics
+- `RGD` - Rat Genome Database
+- `FlyBase` - FlyBase (Drosophila)
+- `WormBase` - WormBase (C. elegans)
+- `Xenbase` - Xenbase (Xenopus)
+- `ZFIN` - Zebrafish Information Network
+- `dictyBase` - dictyBase (Dictyostelium)
+- `EcoGene` - EcoGene (E. coli)
+- `SGD` - Saccharomyces Genome Database (yeast)
+- `PomBase` - PomBase (S. pombe)
+- `TAIR` - The Arabidopsis Information Resource
+
+### Human-Specific
+- `HGNC` - HUGO Gene Nomenclature Committee
+- `CCDS` - Consensus Coding Sequence Database
+
+## Pathway Databases
+
+- `Reactome` - Reactome
+- `BioCyc` - BioCyc
+- `PlantReactome` - Plant Reactome
+- `SIGNOR` - SIGNOR
+- `SignaLink` - SignaLink
+
+## Enzyme and Metabolism
+
+- `EC` - Enzyme Commission number
+- `BRENDA` - BRENDA enzyme database
+- `SABIO-RK` - SABIO-RK (biochemical reactions)
+- `MetaCyc` - MetaCyc
+
+## Disease and Phenotype Databases
+
+- `OMIM` - Online Mendelian Inheritance in Man
+- `MIM` - MIM (same as OMIM)
+- `OrphaNet` - Orphanet (rare diseases)
+- `DisGeNET` - DisGeNET
+- `MalaCards` - MalaCards
+- `CTD` - Comparative Toxicogenomics Database
+- `OpenTargets` - Open Targets
+
+## Drug and Chemical Databases
+
+- `ChEMBL` - ChEMBL
+- `DrugBank` - DrugBank
+- `DrugCentral` - DrugCentral
+- `GuidetoPHARMACOLOGY` - Guide to Pharmacology
+- `SwissLipids` - SwissLipids
+
+## Gene Expression Databases
+
+- `Bgee` - Bgee gene expression
+- `ExpressionAtlas` - Expression Atlas
+- `Genevisible` - Genevisible
+- `CleanEx` - CleanEx
+
+## Proteomics Databases
+
+- `PRIDE` - PRIDE proteomics
+- `PeptideAtlas` - PeptideAtlas
+- `ProteomicsDB` - ProteomicsDB
+- `CPTAC` - CPTAC
+- `jPOST` - jPOST
+- `MassIVE` - MassIVE
+- `MaxQB` - MaxQB
+- `PaxDb` - PaxDb
+- `TopDownProteomics` - Top Down Proteomics
+
+## Protein-Protein Interaction
+
+- `STRING` - STRING
+- `BioGRID` - BioGRID
+- `IntAct` - IntAct
+- `MINT` - MINT
+- `DIP` - Database of Interacting Proteins
+- `ComplexPortal` - Complex Portal
+
+## Ontologies
+
+- `GO` - Gene Ontology
+- `GeneTree` - Ensembl GeneTree
+- `HOGENOM` - HOGENOM
+- `HOVERGEN` - HOVERGEN
+- `KO` - KEGG Orthology
+- `OMA` - OMA orthology
+- `OrthoDB` - OrthoDB
+- `TreeFam` - TreeFam
+
+## Other Specialized Databases
+
+### Glycosylation
+- `GlyConnect` - GlyConnect
+- `GlyGen` - GlyGen
+
+### Protein Modifications
+- `PhosphoSitePlus` - PhosphoSitePlus
+- `iPTMnet` - iPTMnet
+
+### Antibodies
+- `Antibodypedia` - Antibodypedia
+- `DNASU` - DNASU
+
+### Protein Localization
+- `COMPARTMENTS` - COMPARTMENTS
+- `NeXtProt` - NeXtProt (human proteins)
+
+### Evolution and Phylogeny
+- `eggNOG` - eggNOG
+- `GeneTree` - Ensembl GeneTree
+- `InParanoid` - InParanoid
+
+### Technical Resources
+- `PRO` - Protein Ontology
+- `GenomeRNAi` - GenomeRNAi
+- `PubMed` - PubMed literature references
+
+## Common Mapping Scenarios
+
+### Example 1: UniProt to PDB
+```python
+from_db = "UniProtKB_AC-ID"
+to_db = "PDB"
+ids = ["P01308", "P04637"]
+```
+
+### Example 2: Gene Name to UniProt
+```python
+from_db = "Gene_Name"
+to_db = "UniProtKB"
+ids = ["BRCA1", "TP53", "INSR"]
+```
+
+### Example 3: UniProt to Ensembl
+```python
+from_db = "UniProtKB_AC-ID"
+to_db = "Ensembl"
+ids = ["P12345"]
+```
+
+### Example 4: RefSeq to UniProt
+```python
+from_db = "RefSeq_Protein"
+to_db = "UniProtKB"
+ids = ["NP_000207.1"]
+```
+
+### Example 5: UniProt to GO Terms
+```python
+from_db = "UniProtKB_AC-ID"
+to_db = "GO"
+ids = ["P01308"]
+```
+
+## Usage Notes
+
+1. **Database names are case-sensitive**: Use exact names as listed
+
+2. **Many-to-many mappings**: One ID may map to multiple target IDs
+
+3. **Failed mappings**: Some IDs may not have mappings; check the `failedIds` field in results
+
+4. **Batch size limit**: Maximum 100,000 IDs per job
+
+5. **Result expiration**: Results are stored for 7 days
+
+6. **Bidirectional mapping**: Most databases support mapping in both directions
+
+## API Endpoints
+
+### Get available databases
+```
+GET https://rest.uniprot.org/configure/idmapping/fields
+```
+
+### Submit mapping job
+```
+POST https://rest.uniprot.org/idmapping/run
+Content-Type: application/x-www-form-urlencoded
+
+from={from_db}&to={to_db}&ids={comma_separated_ids}
+```
+
+### Check job status
+```
+GET https://rest.uniprot.org/idmapping/status/{jobId}
+```
+
+### Get results
+```
+GET https://rest.uniprot.org/idmapping/results/{jobId}
+```
+
+## Resources
+
+- ID Mapping tool: https://www.uniprot.org/id-mapping
+- API documentation: https://www.uniprot.org/help/id_mapping
+- Programmatic access: https://www.uniprot.org/help/api_idmapping