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SitEx database of eukaryotic protein functional sites

Abbreviation:SitEx

General Information

This record was deprecated on June 25, 2021 for the following reason(s): This resource's homepage no longer exists and a new project page cannot be found.

SitEx is a database containing information on eukaryotic protein functional sites. It stores the amino acid sequence positions in the functional site, in relation to the exon structure of encoding gene This can be used to detect the exons involved in shuffling in protein evolution, or to design protein-engineering experiments.

Homepage http://www-bionet.sscc.ru/sitex/

Countries that developed this resource Russia

Created in 2011

Taxonomic range

Anopheles gambiae

Ascaris suum

Bos taurus

Caenorhabditis elegans

Oryctolagus cuniculus

Protobothrops flavoviridis

Rattus norvegicus

Sus scrofa

Xenopus tropicalis

Knowledge Domains

Subjects

User-defined Tags

Discontinuity coefficient

How to cite this record FAIRsharing.org: SitEx; SitEx database of eukaryotic protein functional sites; DOI: https://doi.org/10.25504/FAIRsharing.5mr9c5; Last edited: June 25, 2021, 2:43 p.m.; Last accessed: Nov 28 2021 2:08 a.m.

Record updated: June 25, 2021, 1:37 p.m. by The FAIRsharing Team.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.5mr9c5' by 'The FAIRsharing Team' at 13:37, 25 Jun 2021 (approved):

	'status' has been modified:
		Before: UNC
		After: DEP

Edits to 'https://fairsharing.org/FAIRsharing.5mr9c5' by 'The FAIRsharing Team' at 10:57, 24 Jun 2021 (approved):

	'status' has been modified:
		Before: RDY
		After: UNC

	'licences' has been modified:
		Before:
			Attribution required||Data
			Publicly available data||Data
		After:
		Added:
		Removed:
			Attribution required||Data
			Publicly available data||Data

	'onto_domains' has been modified:
		Before:
			CDS
			Protein Binding Domain
			Protein domain
			polypeptide_region
			region
			structure
		After:
			CDS
			Protein Binding Domain
			Protein domain
			Structure
			polypeptide_region
			region
			structure
		Added:
			Structure
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.5mr9c5' by 'The FAIRsharing Team' at 09:51, 21 Nov 2018 (approved):

	'domains' has been modified:
		Before:
			Coding sequence (CDS)
			Discontinuity coefficient
			Life Science
			Protein binding motif
			Protein domain
			Sequence
			Structure
		After:
			Amino acid sequence
			Coding sequence (CDS)
			Discontinuity coefficient
			Life Science
			Protein binding motif
			Protein domain
			Sequence
			Structure
		Added:
			Amino acid sequence
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.5mr9c5' by 'The FAIRsharing Team' at 16:22, 14 Sep 2016 (approved):

	'year' has been modified:
		Before: None
		After: 2011

Edits to 'https://fairsharing.org/FAIRsharing.5mr9c5' by 'The FAIRsharing Team' at 11:01, 14 Sep 2016 (approved):

	'contactName' has been modified:
		Before:
			
		After:
			Irina Medvedeva
			Domain list has changed: 
			Previous values:
			CDS sequence||
			Discontinuity coefficient||
			Domain||
			Domain information (from Pfam)||
			Internal exon and functional identifiers||
			Protein functional site information (based on PDB)||
			Protein sequence data|property|http://purl.obolibrary.org/obo/ERO_0000084
			Sequence data|property|http://purl.obolibrary.org/obo/OBI_0000973
			Structure data|information content entity|http://purl.org/obo/owl/PATO#PATO_0000141
			New values: 
			CDS sequence||
			Discontinuity coefficient||
			Domain||
			Domain information (from Pfam)||
			Internal exon and functional identifiers||
			Protein functional site information (based on PDB)||
			Protein sequence data|property|http://purl.obolibrary.org/obo/ERO_0000084
			Sequence data|property|http://purl.obolibrary.org/obo/OBI_0000973
			Structure data|information content entity|http://purl.org/obo/owl/PATO#PATO_0000141
			Life Science|domain|
			Tools have changed: 
			Previous values:
			search
			New values: 
			blast
			Data processes have changed: 
			Previous values:
			annual release
			manual curation
			automated curation
			web interface
			file download(txt)
			SQL database dump
			New values: 
			annual release
			manual curation
			automated curation
			file download(txt)
			SQL database dump
			search
			Licenses have changed: 
			Previous values:
			Attribution required
			Flow Repository Open access
			attribution required
			free for non-commercial use
			New values: 
			Attribution required
			Flow Repository Open access
			free for non-commercial use
			Grants have changed: 
			Previous values:
			New values: 
			14.740.11.0001
			07.514.11.4003
			11-04-92712
			260429
		Added:
		Removed:

In Collections

RDA Covid-19 WG Resources

Support

General

help	http://www-bionet.sscc.ru/sitex/help.php
wikipedia	https://en.wikipedia.org/wiki/SitEx

Additional Information

Contact

Irina Medvedeva

Tools

blast

http://www-bionet.sscc.ru/sitex/blast.php

Access / Retrieve Data

Conditions of Use

Data Release

annual release

No link recorded

Data Curation

manual curation	No link recorded
automated curation	No link recorded

Data Access

file download(txt)	No link recorded
SQL database dump	No link recorded
search	http://www-bionet.sscc.ru/sitex/search.php

Publications

SitEx: a computer system for analysis of projections of protein functional sites on eukaryotic genes.

Medvedeva I., Demenkov P., Kolchanov N., Ivanisenko V.,
Nucleic Acids Res. 2012

View Paper (PubMed) View Publication

Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

No semantic standards defined

Models and Formats

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined

Related Databases

No related databases defined

Implementing Policies

This record is not implemented by any policy.

Credit

Record Maintainer

This record is in need of a maintainer. If you login, you'll be able to claim this record.

Funds

EU FP7 (Government body)
Ministry of Education and Science of the Russian Federation, Moscow, Russia (Government body)
Russian Foundation for Basic Research

Maintains

The Federal Research Center Institute of Cytology and Genetics Lab, Novosibirsk, Russia (Research institute)
Novosibirsk State University, Russia

Grant Number(s)

07.514.11.4003 (Ministry of Education and Science of the Russian Federation, Moscow, Russia)
11-04-92712 (Russian Foundation for Basic Research)
14.740.11.0001 (Ministry of Education and Science of the Russian Federation, Moscow, Russia)
260429 (EU FP7)

SitEx database of eukaryotic protein functional sites

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