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PASS2

General Information

PASS2 contains alignments of structural motifs of protein superfamilies. PASS2 is an automatic version of the original superfamily alignment database, CAMPASS (CAMbridge database of Protein Alignments organised as Structural Superfamilies). PASS2 contains alignments of protein structures at the superfamily level and is in direct correspondence with SCOPe 2.04 release.

Homepage http://caps.ncbs.res.in/pass2/

Countries that developed this resource India

Created in 1998

Taxonomic range

All

Knowledge Domains

Subjects

How to cite this record FAIRsharing.org: PASS2; PASS2; DOI: https://doi.org/10.25504/FAIRsharing.htzwqf; Last edited: Jan. 8, 2019, 1:15 p.m.; Last accessed: Jan 26 2022 8:50 p.m.

Record updated: July 13, 2017, 2:04 p.m. by The FAIRsharing Team.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.htzwqf' by 'The FAIRsharing Team' at 14:04, 13 Jul 2017 (approved):

	'name' has been modified:
		Before: PASS2.4
		After: PASS2

Edits to 'https://fairsharing.org/FAIRsharing.htzwqf' by 'The FAIRsharing Team' at 14:03, 13 Jul 2017 (approved):

	'description' has been modified:
		Before: PASS2 contains alignments of structural motifs of protein superfamilies.
		After: PASS2 contains alignments of structural motifs of protein superfamilies. PASS2 is an automatic version of the original superfamily alignment database, CAMPASS (CAMbridge database of Protein Alignments organised as Structural Superfamilies). PASS2 contains alignments of protein structures at the superfamily level and is in direct correspondence with SCOPe 2.04 release. Domain list has changed:  Previous values: DNA structural variation|None|http://edamontology.org/topic_3175 General purpose|None| Hidden Markov model (HMM)||http://edamontology.org/data_1364 Protein|None|http://purl.obolibrary.org/obo/PR_000000001 Sequence motif||http://edamontology.org/data_1353 New values:  Hidden Markov model (HMM)||http://edamontology.org/data_1364 Sequence motif||http://edamontology.org/data_1353 Life Science|domain| Protein|None|http://purl.obolibrary.org/obo/PR_000000001 Structure-based sequence alignment||http://edamontology.org/operation_0294 Organisations have changed:  Previous values: Department of Biochemistry|University of Cambridge|80 Tennis Court Road|Cambridge|UK | Undefined | Maintains Department of Biotechnology|India | Undefined | Funds Department of Crystallography|Birkbeck College|University of London|UK | Undefined | Maintains National Centre for Biological Sciences|Tata Institute of Fundamental Research|UAS-GKVK campus|Bangalore|Karnataka|India | Undefined | Maintains Wellcome Trust|UK | Undefined | Funds New values:  Department of Biotechnology|Ministry of Science and Technology|India | Government body | Funds Wellcome Trust|UK | Charitable foundation | Funds Department of Biochemistry|University of Cambridge|80 Tennis Court Road|Cambridge|UK | Lab | Maintains Department of Crystallography|Birkbeck College|University of London|UK | Lab | Maintains National Centre for Biological Sciences|Tata Institute of Fundamental Research|UAS-GKVK campus|Bangalore|Karnataka|India | Research institute | Maintains

Edits to 'https://fairsharing.org/FAIRsharing.htzwqf' by 'The FAIRsharing Team' at 15:50, 02 Sep 2016 (approved):

	'description' has been modified:
		Before: Structural motifs of protein superfamilies
		After: PASS2 contains alignments of structural motifs of protein superfamilies.

Support

General

help	http://caps.ncbs.res.in/cgi-bin/pass2/he ...

Additional Information

Contact

R. Sowdhamini

Tools

blast	http://caps.ncbs.res.in/cgi-bin/pass2/tools.py
HMM search	http://caps.ncbs.res.in/cgi-bin/pass2/tools.py

Access / Retrieve Data

Conditions of Use

Data Versioning

versioning by scop release and year of update. Access to historical files possible.

No link recorded

Data Release

According to SCOP release

No link recorded

Data Curation

automated curation	No link recorded
manual curation	No link recorded

Data Access

file download(tab-delimited)	No link recorded
browse	http://caps.ncbs.res.in/cgi-bin/pass2/browse.py
search	http://caps.ncbs.res.in/pass2/

Publications

Definition of general topological equivalence in protein structures. A procedure involving comparison of properties and relationships through simulated annealing and dynamic programming.

Sali A., Blundell TL.,
J. Mol. Biol. 1990