standards > model/format > DOI:10.25504/FAIRsharing.78Lz1O
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ready ProForma

General Information
Developed by the Consortium for Top-Down Proteomics, ProForma is a standardized notation for writing fully characterized proteoforms. A proteoform is a specific set of amino acids arranged in a particular order, which may be further modified (cotranslationally, posttranslationally or chemically) at designated locations. This nomenclature is intended to be both machine and human readable, and to be sufficiently flexible to meet current and foreseeable needs.

How to cite this record ProForma; ProForma; DOI:; Last edited: Jan. 8, 2019, 1:33 p.m.; Last accessed: Dec 03 2021 12:17 a.m.

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Record added: May 28, 2018, 4:19 p.m.
Record updated: June 4, 2018, 12:45 p.m. by The FAIRsharing Team.

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ProForma: A Standard Proteoform Notation.

LeDuc RD,Schwammle V,Shortreed MR,Cesnik AJ,Solntsev SK,Shaw JB,Martin MJ,Vizcaino JA,Alpi E,Danis P,Kelleher NL,Smith LM,Ge Y,Agar JN,Chamot-Rooke J,Loo JA,Pasa-Tolic L,Tsybin YO
J Proteome Res 2018

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Related Databases (4)
UniProt Knowledgebase
The UniProt Knowledgebase (UniProtKB) is the central hub for the collection of functional information on proteins, with accurate, consistent and rich annotation. In addition to capturing the core data mandatory for each UniProtKB entry (mainly, the amino acid sequence, protein name or description, taxonomic data and citation information), as much annotation information as possible is added. This includes widely accepted biological ontologies, classifications and cross-references, and clear indications of the quality of annotation in the form of evidence attribution of experimental and computational data. The UniProt Knowledgebase consists of two sections: a reviewed section containing manually-annotated records with information extracted from literature and curator-evaluated computational analysis (aka "UniProtKB/Swiss-Prot"), and an unreviewed section with computationally analyzed records that await full manual annotation (aka "UniProtKB/TrEMBL").

RESID Database of Protein Modifications
The RESID Database of Protein Modifications is a comprehensive collection of annotations and structures for protein modifications including amino-terminal, carboxyl-terminal and peptide chain cross-link post-translational modifications.

UniCarbKB is an initiative that aims to promote the creation of an online information storage and search platform for glycomics and glycobiology research. The knowledgebase will offer a freely accessible and information-rich resource supported by querying interfaces, annotation technologies and the adoption of common standards to integrate structural, experimental and functional data.

Unimod is a community-supported, comprehensive database of protein modifications for mass spectrometry applications. The aim is to provide accurate and verifiable values, derived from elemental compositions, for the mass differences introduced by all types of natural and artificial modifications. Other important information includes any mass change, (neutral loss), that occurs during MS/MS analysis, and site specificity, (which residues are susceptible to modification and any constraints on the position of the modification within the protein or peptide).

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