About This Database

Domain Modeling

Data description

Data name

Domain Modeling

DOI

10.18908/lsdba.nbdc01193-002

Description of data contents

Predicted structure of the domain, information of the templates, predicted interactions.

Data file

File name :

sahg_domain.zip

File URL :

https://dbarchive.biosciencedbc.jp/data/sahg/LATEST/sahg_domain.zip

File size :

3.4 MB

Simple search URL

http://togodb.biosciencedbc.jp/togodb/view/sahg_domain#en

Data acquisition method

3D structures, protein-ligand interaction, and protein-protein interaction were predicted based on the amino acid sequece by our prediction pipeline (Motono et al., Nucleic Acids Research, 2011, 39, D487-D493).

Data analysis method

Number of data entries

42,581 entries

Data detail

Data item	Description
RefSeqID	RefSeq ID
Link to Protein	(only in SimpleSearch pages) link to Protein Basic Information of the same RefSeqID
chromosome	Chromosome number of the gene
domainIdx	Domain index (sequential) for a protein
apoholoNum	1: Only apo form was modeled. 2:Only holo form. 3:Both apo and holo forms
aafrom	Starting amino acid residue number.
aato	Ending amino acid residue number.
Domain description	Function of the domain region (predicted based on the template protein information).
apo Template	Template protein in apo form.
apo model PDB	Link to the predicted structure.
holo Template	Template protein in holo form.
holo model PDB	Link to the predicted structure.
Detected by	Template search methods
Ligand Binding Residues	Ligand binding residues
Interface Residues	Protein-protein interaction residues
Catalytic Residues	Catalytic residues (only for enzymes)
Ligand	PDBchemical ID for the predicted ligands
morphing	0: No animation data. 1: animation data presented.