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CMD : A Database to Store the Bonding States of Cysteine Motifs with Secondary Structures
Joint Authors
Hussein, Zeti Azura
Salim, Naomie
Shamsir, Mohd Shahir
Bostan, Hamed
Klappa, Peter
Source
Issue
Vol. 2012, Issue 2012 (31 Dec. 2012), pp.1-5, 5 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2012-10-10
Country of Publication
Egypt
No. of Pages
5
Main Subjects
Natural & Life Sciences (Multidisciplinary)
Biology
Abstract EN
Computational approaches to the disulphide bonding state and its connectivity pattern prediction are based on various descriptors.
One descriptor is the amino acid sequence motifs flanking the cysteine residue motifs.
Despite the existence of disulphide bonding information in many databases and applications, there is no complete reference and motif query available at the moment.
Cysteine motif database (CMD) is the first online resource that stores all cysteine residues, their flanking motifs with their secondary structure, and propensity values assignment derived from the laboratory data.
We extracted more than 3 million cysteine motifs from PDB and UniProt data, annotated with secondary structure assignment, propensity value assignment, and frequency of occurrence and coefficiency of their bonding status.
Removal of redundancies generated 15875 unique flanking motifs that are always bonded and 41577 unique patterns that are always nonbonded.
Queries are based on the protein ID, FASTA sequence, sequence motif, and secondary structure individually or in batch format using the provided APIs that allow remote users to query our database via third party software and/or high throughput screening/querying.
The CMD offers extensive information about the bonded, free cysteine residues, and their motifs that allows in-depth characterization of the sequence motif composition.
American Psychological Association (APA)
Bostan, Hamed& Salim, Naomie& Hussein, Zeti Azura& Klappa, Peter& Shamsir, Mohd Shahir. 2012. CMD : A Database to Store the Bonding States of Cysteine Motifs with Secondary Structures. Advances in Bioinformatics،Vol. 2012, no. 2012, pp.1-5.
https://search.emarefa.net/detail/BIM-503174
Modern Language Association (MLA)
Bostan, Hamed…[et al.]. CMD : A Database to Store the Bonding States of Cysteine Motifs with Secondary Structures. Advances in Bioinformatics No. 2012 (2012), pp.1-5.
https://search.emarefa.net/detail/BIM-503174
American Medical Association (AMA)
Bostan, Hamed& Salim, Naomie& Hussein, Zeti Azura& Klappa, Peter& Shamsir, Mohd Shahir. CMD : A Database to Store the Bonding States of Cysteine Motifs with Secondary Structures. Advances in Bioinformatics. 2012. Vol. 2012, no. 2012, pp.1-5.
https://search.emarefa.net/detail/BIM-503174
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-503174