Last Updated: 25 June 2024
‘Macromolecular Complex Reports’ are a sub-collection of the the Gene Groups resource. The Macromolecular Complex Report encompass discrete macromolecular complexes such as the TIP60 complex, the BBSome and include complex variants, such as the testis-specific 26S proteasome. The main feature of these Reports is a ‘Members’ table that lists the genes comprising the macromolecular complex, arranged into a series of subgroups where appropriate. Buttons are provided to export these member genes to our ‘Batch Download’ tool, if you wish to download associated data (phenotypes, expression data, protein interactions etc.), or to a standard FlyBase HitList, if you want to further refine or analyse the gene list. Links to equivalent pages at the Complex Portal, with which FlyBase collaborates to share complex curation are available for many complexes. Macromolecular Complex data may be searched in FlyBase via the 'Complexes' tab of QuickSearch by using the ‘Enter text' box or by clicking on the hyperlinked 'browse’ to access a list of all Macromolecular Complexes. Macromolecular Complex reports integrated into the main Gene Groups resource and so can still be found from the Gene Groups tab or browsable list
All Macromolecular Complex Report in FlyBase are compiled manually by FlyBase curators based on published literature or from curated data provided by Complex Portal. The basis for the membership of each group is clearly attributed: the Members table shows the reference(s) stating that a specific gene is a member of the given complex; a summary of the source material used to complex the group is displayed at the top of the Report; and all source references are given in full at the foot of the page.
General Information
| Name |
The FlyBase full name for the Complex Group.
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| Symbol |
The FlyBase symbol for the Complex Group.
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| Date last reviewed |
Date that the group was created or last reviewed, in format 'YEAR-MONTH-DAY'.
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| Species |
The species for which the Complex Group has been compiled.
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| FlyBase ID |
The unique identifier for the FlyBase Complex Group (FBgg number).
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| Number of members |
The number of genes in the Complex Group.
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Description
| Description |
A short textual description of the group, written by FlyBase curators based on the given reference(s). References are hyperlinked to their respective Reference Report in FlyBase or to PubMed.
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| Notes on Group |
Mainly describes any ‘edge cases’ where the inclusion/exclusion of a specific gene is unclear or debated. Also includes other relevant comments, including acknowledgement where EMBL-EBI curators have compiled the group.
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| Source Material |
Mini-citations of the primary references, hyperlinked to their respective Reference Reports, used to compile the Complex Group.
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Key Gene Ontology (GO) terms
| Molecular Function |
Term(s) from the Molecular Function branch of the Gene Ontology that are most relevant to the Complex Group, hyperlinked to the respective FlyBase 'Term Report'. This term, or a child of it, is used to annotate most/all member genes.
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| Biological Process |
Term(s) from the Biological Process branch of the Gene Ontology that are most relevant to the Complex Group, hyperlinked to the respective FlyBase 'Term Report'. This term, or a child of it, is used to annotate most/all member genes.
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| Cellular Component |
Term(s) from the Cellular Component branch of the Gene Ontology that are most relevant to the Complex Group, hyperlinked to the respective FlyBase 'Term Report'. This term, or a child of it, is used to annotate most/all member genes.
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Enzymatic activity
| Enzyme name (EC) |
Where relevant, the systematic name for the enzyme represented by the Complex Group together with its Enzyme Commission (EC) number. These data are derived from the Gene Ontology (GO) Molecular Function annotation applied to the Complex Group by using the EC cross-references within the GO. Each EC number is linked to the corresponding page at the ExPASy ENZYME database.
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Related Gene Groups
| Parent group(s) |
Any immediate parent super-groups within FlyBase are shown here, hyperlinked to their respective report.
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| Component group(s) |
Any immediate child sub-groups within FlyBase are shown here, hyperlinked to their respective report.
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| Other related group(s) |
Any groups within FlyBase that are related to the current Complex Group but not through a parent-child relationship (e.g. ligands-receptors, enzymes-substrates) are shown here, hyperlinked to their respective report.
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Members
The Members table lists all member genes of the current Complex Group and any subgroups - subgroups are partitioned into individual subsections, the title bar of which is hyperlinked to the report for that subgroup. Member genes are listed alphabetically within each subsection
For all members
| View Orthologs |
Runs the list of genes through the QuickSearch Orthologs tool, and displays a list of orthologs from human and several different model organisms.
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| Export to HitList |
Export all genes in the Members Table to a standard FlyBase HitList, which allows further refinement and analysis of the gene list.
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| Export to Batch Download |
Export all genes in the Members Table to the FlyBase 'Batch Download' tool, which allows bulk download of any associated data fields.
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GO ribbon stack
Each row or 'ribbon' is a graphical summary of a gene product's properties and depth of characterization. The data used to populate ribbons are derived from the Gene Ontology (GO) terms associated with the gene, divided into aspects of molecular function, biological process and cellular component. The GO annotations are grouped under high-level summary categories and are presented as colored cells in the ribbon. The depth of color of each cell indicates how many unique terms are grouped in a particular category. The unique terms that group under a particular cell can be seen by mousing-over or clicking on the cell. Some terms may group under more than one cell because the GO allows multiple ancestry. By stacking the ribbons for each gene in the members table, an at-a-glance comparison of member genes is presented. For more details on how the ribbons are generated see Gene Report - Function.
Members Table
The table can be customised to order and display information of interest. Columns can be added or removed using the 'Show/Hide Columns' button and arranged horizontally by dragging columns. To sort vertically on the data in the column, mouse-over the column header and use the arrow button. The column header text box can be used to only display the genes that have matching text in the column field. By default, the first five columns listed below are shown. Click the 'Reset' button to the default column display.
| Gene Symbol |
The FlyBase symbol for the gene, hyperlinked to the Gene Report for that gene.
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| Gene Name |
The FlyBase full name for the gene.
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| Also Known As |
A list of up to five commonly used symbol synonyms for the gene. (This list is made computationally, based on the frequency of alternative symbols that have been curated from the literature.)
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| Source Material for Membership |
The reference(s) that state a specific gene is a member of this particular Gene Group, hyperlinked to the Reference Report for that reference.
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| Other Gene Groups |
Other Gene Groups to which gene belongs.
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| # All Research Refs |
Number of research publications that discuss the gene in any context.
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| Antibody |
Indicates whether an antibody to the gene product has been curated by FlyBase. Links to Stocks and Reagents section of the Gene report which contains an Antibody Information subsection.
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| Classical/Insertion Alleles |
Number of classical and insertion alleles for gene. Links to Alleles, Insertions and Transgenic Constructs section of the Gene report which contains a Classical and Insertion Alleles subsection.
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| Transgenic Constructs |
Number of transgenic constructs for gene. Links to Alleles, Insertions and Transgenic Constructs section of the Gene report which contains a Transgenic Constructs subsection.
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| Disease Models (experimental) |
List of diseases showing human disease(s) that are being modelled by a given mutant or transgenic allele. A more detailed table is available on the Disease Ontology (DO) Annotations section of the Gene report.
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| Potential Disease Models |
List of diseases showing human disease(s) that are associated with the human ortholog of the given D. melanogaster gene (only when ortholog calls are supported by at least 3 algorithms). A more detailed table is available on the Disease Ontology (DO) Annotations section of the Gene report.
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| Human orthologs |
Orthology calls between D. melanogaster and human, as provided by the DRSC Integrative Ortholog Prediction Tool (DIOPT). Only ortholog calls supported by at least 3 algorithms are shown.
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| Testis-Specificity Index |
The testis-specificity index as calculated by Vedelek et al., 2018 from modENCODE tissue expression data. The scores indicate the degree of testis bias in expression and range from -2.52 (underrepresented) to 5.2 (very high testis bias).
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| Enzyme Name (EC) |
The systematic name(s) for an enzyme together with its Enzyme Commission (EC) number(s). These data are derived from our Gene Ontology (GO) Molecular Function annotations by using the EC cross-references within the GO. Each EC number is linked to the corresponding page at the ExPASy ENZYME database.
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| GO Molecular Function (Experimental) |
Any Molecular Function term or terms from the Gene Ontology (GO) that have been assigned to the gene based on experimental evidence (this may or may not relate the gene product's activity in the featured pathway). The exact term 'protein binding' (GO:0005515) has been excluded, as it has little meaning without display of the interacting partner.
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| GO Molecular Function (Non-Experimental) |
Any Molecular Function term or terms from the Gene Ontology (GO) that have been assigned to the gene based on non-experimental evidence e.g. sequence similarity (this may or may not relate the gene product's activity in the featured pathway). The exact term 'protein binding' (GO:0005515) has been excluded, as it has little meaning without display of the interacting partner.
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| Cytogenic Map |
A computed cytological location, based on the position on the genome to which the gene maps. See Computed cytological data for a detailed description of how this computed cytological location is calculated.
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| Pathways |
FlyBase Signaling or Metabolic Pathway groups that the gene has been associated with.
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External Data
| Equivalent Group(s) |
The name and source of any equivalent Gene Group pages for other organisms such as humans (HUGO Gene Nomenclature Committee, HGNC), nematodes (WormBase) or Arabidopsis (The Arabidopsis Information Resource, TAIR), hyperlinked to that particular resource or to the corresponding Complex Portal entry.
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| Other resource(s) |
The name of any other specialist websites relevant to the Gene Group, hyperlinked to that resource.
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Synonyms and Secondary IDs
| Synonyms(s) |
Alternative commonly used symbols/names used in Drosophila literature and/or the wider field to refer the Gene Group.
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| Secondary FlyBase ID(s) |
Any non-current FlyBase Gene Group ID(s) (FBgg numbers) that have been used previously to refer to the Complex Group but which have retired for some reason (e.g. a new FBgg number is assigned if two or more goups are merged, or if a single group is split into separate groups).
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References
The full citations of all references used to compile the group, organised by publication type, and hyperlinked to their respective Reference Reports.