Schema for wgEncodeGencodePdbVM38

Database: mm39 Primary Table: wgEncodeGencodePdbVM38 Row Count: 16,430 Data last updated: 2025-09-09
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`	ENSMUST00000112701.8	`varchar(255)`	values	GENCODE transcript identifier
`pdbId`	6CGS	`varchar(255)`	values	Protein Data Bank (PDB) identifier

Connected Tables and Joining Fields


	mm39.wgEncodeGencodeAttrsVM38.transcriptId (via wgEncodeGencodePdbVM38.transcriptId)

Sample Rows

transcriptId	pdbId
ENSMUST00000112701.8	6CGS
ENSMUST00000027542.13	6CGS
ENSMUST00000172005.8	6CGS
ENSMUST00000188952.7	1B0X
ENSMUST00000188952.7	2HEL
ENSMUST00000188952.7	2XYU
ENSMUST00000188952.7	2Y6M
ENSMUST00000188952.7	2Y6O
ENSMUST00000188797.7	1B0X
ENSMUST00000188797.7	2HEL

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