PIR SuperFamily

Abbreviation:PIRSF

General Information

The PIR SuperFamily concept is being used as a guiding principle to provide comprehensive and non-overlapping clustering of UniProtKB sequences into a hierarchical order to reflect their evolutionary relationships.

Homepage http://pir.georgetown.edu/pirwww/dbinfo/pirsf.shtml

Developed in United States

Created in 1984

Taxonomic range

All

Knowledge Domains BETA

Subjects BETA

How to cite this record FAIRsharing.org: PIRSF; PIR SuperFamily; DOI: https://doi.org/10.25504/FAIRsharing.vssch2; Last edited: Jan. 15, 2019, 1:50 p.m.; Last accessed: Jan 19 2019 10:36 a.m.

Record updated: Jan. 15, 2019, 1:48 p.m. by The FAIRsharing Team.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.vssch2' by 'The FAIRsharing Team' at 13:48, 15 Jan 2019 (approved):

	'organizations' has been modified:
		Before:
			National Institutes of Health (NIH), Bethesda, MD, USA|http://www.nih.gov|Funds
			Georgetown University Medical Center , Georgetown University, Washington DC, USA|https://gumc.georgetown.edu/|Maintains
			PIR|http://pir.georgetown.edu|Maintains
			University of Delaware, USA|http://www.udel.edu|Maintains
			European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK|https://www.ebi.ac.uk/|Maintains
			European Commission under FP7 Grant Agreement|http://ec.europa.eu/research/fp7/index_en.cfm?pg=documents|Undefined
		After:
			National Institutes of Health (NIH), Bethesda, MD, USA|http://www.nih.gov|Funds
			Georgetown University Medical Center , Georgetown University, Washington DC, USA|https://gumc.georgetown.edu/|Maintains
			PIR|http://pir.georgetown.edu|Maintains
			University of Delaware, USA|http://www.udel.edu|Maintains
			European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK|https://www.ebi.ac.uk/|Maintains
			European Commission under FP7 Grant Agreement|http://ec.europa.eu/research/fp7/index_en.cfm?pg=documents|Funds
		Added:
			European Commission under FP7 Grant Agreement|http://ec.europa.eu/research/fp7/index_en.cfm?pg=documents|Funds
		Removed:
			European Commission under FP7 Grant Agreement|http://ec.europa.eu/research/fp7/index_en.cfm?pg=documents|Undefined

Edits to 'https://fairsharing.org/FAIRsharing.vssch2' by 'The FAIRsharing Team' at 13:47, 15 Jan 2019 (approved):

	'organizations' has been modified:
		Before:
			Georgetown University, DC, USA|http://gumc.georgetown.edu|Maintains
			PIR|http://pir.georgetown.edu/pirwww/about/sponsor.shtml|Maintains
			University of Delaware, USA|http://www.udel.edu|Maintains
			European Commission under FP7 Grant Agreement|http://ec.europa.eu/research/fp7/index_en.cfm?pg=documents|Undefined
			Swiss Institute of Bioinformatics (SIB)|http://www.sib.swiss/|Maintains
			National Institutes of Health (NIH), Bethesda, MD, USA|http://www.nih.gov|Funds
		After:
			National Institutes of Health (NIH), Bethesda, MD, USA|http://www.nih.gov|Funds
			Georgetown University Medical Center , Georgetown University, Washington DC, USA|https://gumc.georgetown.edu/|Maintains
			PIR|http://pir.georgetown.edu|Maintains
			University of Delaware, USA|http://www.udel.edu|Maintains
			European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK|https://www.ebi.ac.uk/|Maintains
			European Commission under FP7 Grant Agreement|http://ec.europa.eu/research/fp7/index_en.cfm?pg=documents|Undefined
		Added:
			Georgetown University Medical Center , Georgetown University, Washington DC, USA|https://gumc.georgetown.edu/|Maintains
			PIR|http://pir.georgetown.edu|Maintains
			European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK|https://www.ebi.ac.uk/|Maintains
		Removed:
			Georgetown University, DC, USA|http://gumc.georgetown.edu|Maintains
			PIR|http://pir.georgetown.edu/pirwww/about/sponsor.shtml|Maintains
			Swiss Institute of Bioinformatics (SIB)|http://www.sib.swiss/|Maintains

	'supportLinks' has been modified:
		Before:
			FAQ|http://pir.georgetown.edu/pirwww/support/faq.shtml
			help|http://pir.georgetown.edu/pirwww/support/help.shtml
			training|http://pir.georgetown.edu/pirwww/about/doc/tutorials/iproclasstutorial.ppt
		After:
			FAQ|http://pir.georgetown.edu/pirwww/support/faq.shtml
			help|http://pir.georgetown.edu/pirwww/support/help.shtml
		Added:
		Removed:
			training|http://pir.georgetown.edu/pirwww/about/doc/tutorials/iproclasstutorial.ppt

Edits to 'https://fairsharing.org/FAIRsharing.vssch2' by 'The FAIRsharing Team' at 16:02, 05 Aug 2018 (approved):

	'related_databases' has been modified:
		Before:
			ProtoNet
		After:
			ProtoNet
			UniProt Knowledgebase
		Added:
			UniProt Knowledgebase
		Removed:

	'name' has been modified:
		Before: PIRSF; a whole-protein classification database
		After: PIR SuperFamily

	'dataProcesses' has been modified:
		Before:
			Download
			search
			advanced search
		After:
			Download
			search
			advanced search
			Scan
			Batch Retrieval
			Text search
		Added:
			Scan
			Batch Retrieval
			Text search
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.vssch2' by 'The FAIRsharing Team' at 21:12, 04 Oct 2016 (approved):

	'contactName' has been modified:
		Before:
			
		After:
			General contact
		Added:
		Removed:

Support

General

FAQ	http://pir.georgetown.edu/pirwww/support ...
help	http://pir.georgetown.edu/pirwww/support ...

Additional Information

Contact	General contact
Identifiers.org	MIR:00000017

Tools

BLAST

http://pir.georgetown.edu/pirwww/search/blast.shtml

Access / Retrieve Data

Conditions of Use

Applies to: Data use

Attribution required
Open Data Commons (ODC) Public Domain Dedication and Licence (PDDL) 1.0

Data Access

Download	ftp://ftp.pir.georgetown.edu/databases/
search	http://pir.georgetown.edu/pirwww/search/
advanced search	http://research.bioinformatics.udel.edu/peptidematch/index.jsp
Scan	https://pir.georgetown.edu/pirwww/search/pirsfscan.shtml
Batch Retrieval	https://pir.georgetown.edu/pirwww/search/batch_sf.shtml
Text search	https://pir.georgetown.edu/pirwww/search/textsearch_sf.shtml

Publications

PIRSF: family classification system at the Protein Information Resource.

Wu CH., Nikolskaya A., Huang H., Yeh LS., Natale DA., Vinayaka CR., Hu ZZ., Mazumder R., Kumar S., Kourtesis P., Ledley RS., Suzek BE., Arminski L., Chen Y., Zhang J., Cardenas JL., Chung S., Castro-Alvear J., Dinkov G., Barker WC.,
Nucleic Acids Res. 2004

View Paper (PubMed)

Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

No semantic standards defined

Models and Formats

FASTA Sequence Format

Metrics

No metrics standards defined

Related Databases

Implementing Policies

This record is not implemented by any policy.

Credit

Record Maintainer

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Funds

National Institutes of Health (NIH), Bethesda, MD, USA (Government body)
European Commission under FP7 Grant Agreement (Government body)

Maintains

Georgetown University Medical Center , Georgetown University, Washington DC, USA (University)
PIR (Research institute) Lead
University of Delaware, USA (University)
European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK (Research institute)

PIR SuperFamily

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