Protein noncovalent complexes compose most of the essential biological machines in the cell. The characterization of protein complexes and assemblies using mass spectrometry (MS) has significant advantages over many other biophysical methods because of the inherent sensitivity and resolution of MS. The applicability of MS coupled with electrospray ionization (ESI) for the measurement of large proteins and protein complexes has been furthered by the development of sensitive analyzers, such as the time-of-flight (TOF) analyzer. Moreover, sample preparation has a very important role for such studies, as it could significantly affect the results of mass spectrometry experiments. We discuss the experimental variables for the ESI-MS detection of noncovalent protein complexes by featuring two different protein systems: yeast enolase is a 93-kDa homodimeric complex, and alpha-synuclein is a small, 14-kDa protein implicated in the pathogenesis of Parkinson's disease and binds noncovalently to endogenous polyamines, such as spermine.
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| Evidence ID | Analyze ID | Gene/Complex | Systematic Name/Complex Accession | Qualifier | Gene Ontology Term ID | Gene Ontology Term | Aspect | Annotation Extension | Evidence | Method | Source | Assigned On | Reference |
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| Evidence ID | Analyze ID | Gene | Gene Systematic Name | Phenotype | Experiment Type | Experiment Type Category | Mutant Information | Strain Background | Chemical | Details | Reference |
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| Evidence ID | Analyze ID | Gene | Gene Systematic Name | Disease Ontology Term | Disease Ontology Term ID | Qualifier | Evidence | Method | Source | Assigned On | Reference |
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| Evidence ID | Analyze ID | Regulator | Regulator Systematic Name | Target | Target Systematic Name | Direction | Regulation of | Happens During | Regulator Type | Direction | Regulation Of | Happens During | Method | Evidence | Strain Background | Reference |
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| Site | Modification | Modifier | Source | Reference |
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| Evidence ID | Analyze ID | Interactor | Interactor Systematic Name | Interactor | Interactor Systematic Name | Allele | Assay | Annotation | Action | Phenotype | SGA score | P-value | Source | Reference | Note |
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| Evidence ID | Analyze ID | Interactor | Interactor Systematic Name | Interactor | Interactor Systematic Name | Assay | Annotation | Action | Modification | Source | Reference | Note |
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| Complement ID | Locus ID | Gene | Species | Gene ID | Strain background | Direction | Details | Source | Reference |
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| Evidence ID | Analyze ID | Dataset | Description | Keywords | Number of Conditions | Reference |
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