SACS—self-maintaining database of antibody crystal structure information
Abstract
Abstract Motivation: The rapid increase in the number of structures in the Protein Databank (PDB) makes it difficult to find all structures in a given protein class. Automatically-maintained web-based summaries are one solution to this problem. Results: Summary of Antibody Crystal Structures (SACS), a self-maintaining web-site containing summary information on antibody structures in the PDB, is described. Mirrored PDB data are processed automatically using a Make-based system to identify new antibody structures. The PDB header records and sequence data are then parsed to identify a number of features of the structure and the data are stored using eXtensible Markup Language (XML). eXtensible Stylesheet Language: Transformations (XSLT), a new style sheet language for XML, is used to generate Hypertext Markup Language (HTML) pages containing either a one-line summary of every structure or a more detailed page describing a single antibody. Availability: The pages are accessible at http://www.bioinf.org.uk/abs/sacs/or http://www.rubic.rdg.ac.uk/abs/sacs/ Contact: a.c.r.martin@reading.ac.uk; andrew@bioinf.org.uk * To whom correspondence should be addressed.
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Antibody structures in the Protein Data Bank (PDB) have been extracted and compiled into various datasets.
“Antibody structures in the Protein Data Bank (PDB) have been extracted and compiled into various datasets [16].”
From Computational and artificial intelligence-based methods for antibody development (2023) · cites this paper as [16]
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- Authors
- Allcorn, L. C., & Martin, A. C. R.
- Affiliations
- University of Reading (GB)
- ORCID
- Martin, Andrew C. R.
- Venue
- Bioinformatics
- Publisher
- Oxford University Press (OUP)
- Published
- 2002-01-01
- Volume
- 18
- Issue
- 1
- Pages
- 175-181
- ISSN
- 1367-4803 (ISSN-L)
- 1367-4811
- OpenAlex
- W2171049846
- Cited by
- 74
- References
- 9
- Citations by year
- 2026: 2 · 2025: 3 · 2024: 5 · 2023: 1 · 2022: 1 · 2021: 3 · 2020: 2 · 2019: 2 · 2018: 1 · 2016: 5 · 2015: 3 · 2014: 7 · 2013: 4 · 2012: 3
- FWCI
- 1.17
- Type
- journal article
- Language
- en
- Open access
- closed
- Locations
- Bioinformatics (publishedVersion)
- PubMed (publishedVersion)
- UCL Discovery (University College London) (submittedVersion)
- Topics
- Physical Sciences › Materials Science › Materials Chemistry › Enzyme Structure and Function
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Protein Structure and Dynamics
- Health Sciences › Medicine › Radiology, Nuclear Medicine and Imaging › Monoclonal and Polyclonal Antibodies Research
- Keywords
- antibody crystal structure, Protein Data Bank, XML, XSLT, HTML generation
- MeSH terms
- Antibodies, Crystallography, X-Ray, Computational Biology, Internet, Databases, Protein
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