Schema for wgEncodeGencodePdbV49

Database: hg38 Primary Table: wgEncodeGencodePdbV49 Row Count: 373,430 Data last updated: 2025-09-08
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`	ENST00000378391.6	`varchar(255)`	values	GENCODE transcript identifier
`pdbId`	2N1I	`varchar(255)`	values	Protein Data Bank (PDB) identifier

Connected Tables and Joining Fields


	hg38.wgEncodeGencodeAttrsV49.transcriptId (via wgEncodeGencodePdbV49.transcriptId)

Sample Rows

transcriptId	pdbId
ENST00000378391.6	2N1I
ENST00000378391.6	6BW4
ENST00000270722.10	2N1I
ENST00000270722.10	6BW4
ENST00000619609.1	4DAT
ENST00000619609.1	4DAU
ENST00000619609.1	8QL0
ENST00000619609.1	9FMN
ENST00000375448.4	1WD8
ENST00000375448.4	1WD9

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