Schema for wgEncodeGencodePdbVM39

Database: mm39 Primary Table: wgEncodeGencodePdbVM39 Row Count: 17,289 Data last updated: 2026-04-24
Format description: GENCODE transcript to Protein Data Bank (PDB) protein structure mapping
On download server: MariaDB table dump directory

field	example	SQL type	info	description
`transcriptId`	ENSMUST00000028024.5	`varchar(255)`	values	GENCODE transcript identifier
`pdbId`	2HEW	`varchar(255)`	values	Protein Data Bank (PDB) identifier

Connected Tables and Joining Fields


	mm39.wgEncodeGencodeAttrsVM39.transcriptId (via wgEncodeGencodePdbVM39.transcriptId)

Sample Rows

transcriptId	pdbId
ENSMUST00000028024.5	2HEW
ENSMUST00000028024.5	2HEY
ENSMUST00000086084.2	2Q8O
ENSMUST00000086084.2	2QDN
ENSMUST00000086084.2	3B9I
ENSMUST00000086084.2	3FC0
ENSMUST00000086084.2	7E57
ENSMUST00000086084.2	7KHX
ENSMUST00000027165.3	2NAE
ENSMUST00000075374.10	1WG6

Note: all start coordinates in our database are 0-based, not 1-based. See explanation here.