ArticleAdvances in bioinformatics2010
PROCARB: A Database of Known and Modelled Carbohydrate-Binding Protein Structures with Sequence-Based Prediction Tools.
Article in Advances in bioinformatics, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed, 39 citations in OpenAlex.
- Predicting protein-carbohydrate binding sites: a deep learning approach integrating protein language model embeddings and structural features.Briefings in bioinformatics · 2026Article
- The Human Omnibus of Targetable Pockets.Journal of cheminformatics · 2025Article
- Databases of ligand-binding pockets and protein-ligand interactions.Computational and structural biotechnology journal · 2024Review
- PeSTo-Carbs: Geometric Deep Learning for Prediction of Protein-Carbohydrate Binding Interfaces.Journal of chemical theory and computation · 2024Article
- OGP: A Repository of Experimentally Characterized O-glycoproteins to Facilitate Studies on O-glycosylation.Genomics, proteomics & bioinformatics · 2021Article
- Three-Dimensional Structures of Carbohydrates and Where to Find Them.International journal of molecular sciences · 2020Review
- mACPpred: A Support Vector Machine-Based Meta-Predictor for Identification of Anticancer Peptides.International journal of molecular sciences · 2019Article
- CHARMM-GUI Glycan Modeler for modeling and simulation of carbohydrates and glycoconjugates.Glycobiology · 2019Article
- Crystal structure of theThe Journal of biological chemistry · 2018Article
- Insights into the effects of glycosylation and the monosaccharide-binding activity of the plant lectin CrataBL.Glycoconjugate journal · 2017Article
- A role for LHC1 in higher order structure and complement binding of the Cryptococcus neoformans capsule.PLoS pathogens · 2014Article
- Community-based network study of protein-carbohydrate interactions in plant lectins using glycan array data.PloS one · 2014Article
- Chromosomal copy number variation, selection and uneven rates of recombination reveal cryptic genome diversity linked to pathogenicity.PLoS genetics · 2013Article
- SPRITE and ASSAM: web servers for side chain 3D-motif searching in protein structures.Nucleic acids research · 2012Article
- Article
Corrections and comments
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Authors and funding
4 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Understanding of the three-dimensional structures of proteins that interact with carbohydrates covalently (glycoproteins) as well as noncovalently (protein-carbohydrate complexes) is essential to many biological processes and plays a significant role in normal and disease-associated functions. It is important to have a central repository of knowledge available about these protein-carbohydrate complexes as well as preprocessed data of predicted structures. This can be significantly enhanced by tools de novo which can predict carbohydrate-binding sites for proteins in the absence of structure of experimentally known binding site. PROCARB is an open-access database comprising three independently working components, namely, (i) Core PROCARB module, consisting of three-dimensional structures of protein-carbohydrate complexes taken from Protein Data Bank (PDB), (ii) Homology Models module, consisting of manually developed three-dimensional models of N-linked and O-linked glycoproteins of unknown three-dimensional structure, and (iii) CBS-Pred prediction module, consisting of web servers to predict carbohydrate-binding sites using single sequence or server-generated PSSM. Several precomputed structural and functional properties of complexes are also included in the database for quick analysis. In particular, information about function, secondary structure, solvent accessibility, hydrogen bonds and literature reference, and so forth, is included. In addition, each protein in the database is mapped to Uniprot, Pfam, PDB, and so forth.
Identifiers
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.