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The RESID
Database is a comprehensive collection of annotations and structures
for protein modifications including amino-terminal, carboxyl-terminal
and peptide chain cross-link, pre-, co- and post-translational
modifications.
The RESID Database
provides the following information:
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Unique codes,
the letters 'AA' followed by four digits, for each modification
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Names and
frequently encountered alternate names
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IUPAC
systematic chemical names
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Chemical
Abstracts (CAS) registry numbers for the free amino acid form of the
residue or for the covalently bound moiety
(CAS Registry Numbers are copyrighted by the American Chemical Society)
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Elemental
formulas for the residues as they occur in peptide chains
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Average isotope
formula weights and most common isotope formula weights suitable for
use in mass spectroscopy
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Correction
elemental formulas, representing the difference between the residue
elemental formula and the formula for the encoded amino acid
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Correction
formula weights, the differences between the residue formula weights
and the formula weights for the encoded amino acids, with both the
chemical average isotope weight difference and the physical most common
isotope weight difference
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Creation,
structure revision, and text change dates for the database entries
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Bibliographic
reference information including author names, journal citation, article
title, reference identifier, cross-references to PubMed and the Protein
Data Bank, with additional notes on the experimental methods used to
detect and identify modifications
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General
comments on the modifications including sequence motifs
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Enzyme
activities that produce the modifications
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The IUPAC-IUB
standard single-letter codes and three-letter abbreviations for the
genetically encoded amino acids that may give rise to the modified
residue, and for sequence ambiguities
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Conditions for
the occurrence of the residue, including whether it is amino-terminal,
carboxyl-terminal, secondary or incidental to other modifications, the
number of peptide chains the residue cross-links, and cross-references
to the Gene Ontology Database
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Keywords and
MESH terms associated with each modification
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The feature
annotations for the modifications as they appear in the UniProt
Knowledgebase, the Universal Protein Resource comprising PIR and the
Swiss-Prot protein sequence databases
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GIF format
drawings of the chemical structures
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PDB format
models
The current version
of the RESID Database is 48.00 released with 428 entries on December 31,
2006.
Internet access to
the most current version of the RESID Database is available by ftp from
the European Bioinformatics Institute and from the National Cancer
Institute Frederick Advanced Biomedical Computing Center. A searchable
version is available through the European Bioinformatics Institute.
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