About This Database

TMFunction data

Data description

Data name

TMFunction data

DOI

10.18908/lsdba.nbdc00714-001

Description of data contents

TMFunction is a database of functional residues in alpha-helical and beta-barrel membrane proteins. Each protein is identified with its name and source alongwith the UniProt code. The protein data bank (PDB) codes are also given for available proteins. Different methods and experimental parameters, for example, affinity, dissociation constant, IC50, activity etc. are given in the database. Further, we have provided the numerical experimental value for each residue (or mutant) in a protein. The experimental data are collected from the literature both by searching the journals as well as with the keyword search at PubMed. In addition, complete reference is given with journal citation and PMID number.

Data file

File name :

tmfunction.zip

File URL :

https://dbarchive.biosciencedbc.jp/data/tmfunction/LATEST/tmfunction.zip

File size :

48.5 KB

Simple search URL

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

Data acquisition method

UniProt, PDB, PubMed

Data analysis method

Number of data entries

2,907 entries

Data detail

Data item	Description
Entry	Entry
Residue(mutation)	Name of residue with mutation
Residue	Name of residue
Functionally important	Functionally important or not
Function of the protein	Function of the protein
Location	Location of residue in the protein
Protein Name(abbreviation)	Protein Name(abbreviation)
Source(scientific name)	Source of protein (scientific name)
Source(english name)	Source(english name)
Authors	Authors of reference
Journal Reference	Journal Reference
PMID	PubMed ID of reference
Experiments	Experiments
Experimental data	The value with "Parameter" shows a measurement value in experiments.
Parameter	Experimental parameter
Methods/conditions	Experimental methods/conditions
PDB ID	PDB ID of the protein structure
ASA	Accessible surface area
Sec. Str	Secondary structure of this protein G: 3-10 helix H: Helix L: Loop
Uniprot ID	UniProt ID of protein
Type	Type of protein
Remarks	Remarks
Keywords	Keywords