IntAct

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What is this view?

Binary interactions

In this tab, we display the list of interactions that you have selected using one of our search features. Despite the fact that our data are annotated to accurately reflect the interactions reported in scientific literature, the data is shown in this view as binary interactions. Whenever the data was reported as a co-complex involving more than two molecules, we store it as such in the IntAct database and post-process it so the portal can show it as binary interaction. This post-processing is the Spoke Expansion model (connects bait to all preys):



sourceExp

At any moment you can choose to display the expansion column in this view in order to see which interaction are spoke expanded and which are not.

Description of what has changed

  • We have added more download options to allow users to retrieve their interaction set using more standard formats such as PSI-MI XML and PSIMITAB (version 2.5, 2.6 or 2.7) but also XGMML, RDF and Biopax (level 2 and 3).
  • We have now four different table views : minimal(molecule names and interaction AC), basic (minimal + molecule links, interaction detection method, negative), standard(minimal + molecule species, confidences, publication details, experiment details), expanded (standard + more experiment details) and complete (all mitab 2.7 columns).

Configuring the view to your need"

In the header of the interaction table you will find a button: ‘Change Column Display’ that will show you all the columns/Table views available and allow you to update the current selected set.

Downloading the data into Standard formats"

In the header of the interaction table you will find a drop down list that contains all the formats currently supported when downloading the interaction data. Select one of them and click the export button next to the list. Please note that PSI-MI XML is only available when the interaction set is no bigger than 1000 interactions.

Opening the interaction details"

Clicking on the magnifying glass in the first column of the interaction table will open the details of the corresponding interaction in the Interaction Details tab, giving you access to more details of the manually curated record.
What is this view?

Browsing (Browse Tab)

This tab is meant to give you access to more content based on the currently selected set of interactions. As you can see, in this tab we have grouped features under the interacting molecule types. Please note that some of these functionalities will only allow you to include up to 200 molecules , if you exceed this number you will see the warning icon (This number has been reduced to 125 molecules for mRNA expression). Now let’s look at the features available to you:

Listing the molecules involved by specific type

Clicking on the ‘List All’ present under each molecule type will open the corresponding list of molecule in the List Tab.

Limiting the scope of the current dataset with the Uniprot Taxonomy ontology

Allows users to browse the Uniprot Taxonomy hierarchy as a tree and select terms in order to narrow down their dataset. Once a term is selected, you are taken back to the interaction tab to review your dataset.

Limiting the scope of the current dataset with the GO ontology

Allows users to browse the GO hierarchy as a tree and select terms in order to narrow down their dataset. Once a term is selected, you are taken back to the interaction tab to review your dataset.

Limiting the scope of the current dataset with the ChEBI ontology

Allows users to browse the ChEBI hierarchy as a tree and select terms in order to narrow down their dataset. Once a term is selected, you are taken back to the interaction tab to review your dataset.

Bulk linking to third party resources by using involved proteins

  • Proteins by Reactome pathway: Sends your proteins to the Reactome SkyPainter that will show you the pathways in which these molecules are know to play a role.
  • Proteins by Chromosomal location: Sends your list of proteins to Ensembl’s Karyotype viewer and overlays the proteins on the chromosomes.
  • Proteins by mRNA expression: Sends your set of proteins to the ArrayExpress Atlas that will show the known gene expression based on experimental studies.
What is this view?

Searching Interactions (Search Tab)

As you can see in this tab we are now trying to give you more targeted choice to do your queries, please note that the examples provided in this tab are live links so you can simply click them to see the resulting interactions sets.

Using the Quick Search

In this search panel you are free to type anything that might relate to interactions, whether it is properties of their interactor (gene name, identifiers, GO term…) or more specific to the interaction like publication, authors, experimental detection method, ...

Some examples:

  • Try the query: imatinib
    This is a drug for which we have curated a number of interactions.
    Once you press the search button you should be taken to the Interaction Tab that lists 130 binary interactions.
    If you want to construct more complex queries we recommend you take a look at the Molecular Interaction Query Language, accessible from the quick search panel.
  • Try the query: species:yeast AND type:"direct interaction"
    This query selects all interactions involving yeast interactors that have been shown to have direct interactions. If you customize the column display of the interaction tab, you will see that not only “direct interaction” have been selected but also children terms in the PSI-MI ontology.

Using the Ontology Search

Open the Rearch Tab. This panel is specialised to give you an easy access to ontology search. So far you can search on 4 ontologies:
  • Gene Ontology
  • InterPro
  • PSI-MI
  • ChEBI

Whenever you start typing a query in this search panel, the system will search as you type and propose a list of matching controlled vocabulary terms. You can then select one of them and select matching interactions.

For example, type: cancer
You will be presented with a few choices, please note that each term is followed by the count of matching interactions in the IntAct database.

Select a term with the mouse or using the keyboard cursor keys and you will be taken to the interaction tab.

Searching the Compound chemical structure

In this panel you will be able to draw all or part of a chemical structure and search for chemical compounds. If you get any matched, you can then see all interactions involving them.

First you have to open up the chemical search panel so that the applet can load, it might take a few seconds. Then you can start drawing your structure, for instance:

Once you have drawn your structure, select Similarity and press Search. You should be presented with a list of matching compound. Now choose one molecule and click the link: IntAct interactions. You will be taken to the interaction tab to review the data.

Complex Expansion

Binary interactions generated by co-complex expansion

Why should you care about complex expansion ?

Some experimental methods such as Tandem Affinity Purification do generate molecular interactions that can involve more than 2 molecules. Despite the fact that IntAct curation team do capture the molecular interaction as they were reported in the corresponding experiment, when you search using the intact web site, the results of your query is always shown as set of binary interactions (i.e. 2 molecules). We would like to draw your attention on the fact that whenever the reported interaction was a co-complex we do apply an expansion algorithm that transform this n-ary interaction into a set of binary interactions. While none of these agorithms is perfect and will very likely generate some false positive interactions, it is useful to present the data in a consistent manner. Bear in mind that we will strive to differentiate in the search results which interactions are a real experimental binary from expanded ones.

Existing expansion algorithm

There are several known algorithm allowing to transform an n-ary interaction into a set of binaries. The illustration below present the two well known expansion model and illustrates why they can be incorrect.

sourceExp

  • Spoke expansion: Links the bait molecule to all prey molecules. If N is the count of molecule in the complex, it generated N-1 binary interactions.
  • Matrix expansion: Links all molecule to all other molecule present in the complex. If N is the count of molecule in the complex, it generated (N*(N-1))/2 binary interactions.

Now the issue (as illustrated at the bottom right of the diagram above) with these two models lies in the fact that the real complex might not be articulated around the experimental bait but instead, this bait might be linked to a smaller complex, hence most binary interaction generated by spoke and matrix expansion result in false positive.

PSICQUIC

How is the number of interactions in other databases obtained?

PSICQUIC is a standard way to access molecular interaction databases across which it repeats the same query. The number of databases providing data may vary, depending on the status of their services and only those that are active are used in this query. By clicking on the number of interactions you will be redirected to the PSICQUIC View, where you can browse the results in those other resources.

The services currently active are:

Check the PSICQUIC site for more information.

Biological Complexes

How is the number of biological complexes in IntAct obtained?

The IntAct Complex Portal is is a manually curate, encyclopaedic resource of macromolecular complexes from a number of key model organisms. All data is freely available for search and download.

Check the Complex Portal Documentation for more information.

IMEx

What is the significance of the IMEx dataset?"

IMEx is a network of databases which have agreed to supply a non-redundant set of data expertly manually annotated to the same consistent detailed standard which, as such, represents a high-quality subset of the data each individually provides. The number of databases providing data may vary, depending on the status of their services and only those that are active are used in this query. By clicking on the number of interactions you will be redirected to the IMEx View, where you can browse the results in those other resources.

The services currently active are:

Check the IMEx site for more information.

What is this view?

Representation of Experimental Features

This section shows the graphical representation of experimental features, where each participant is represented as a white rectangle with a black border and a line for each hundredth amino acid. All available features are attached to their associated participant and their categories are represented in the right side of the legend. The left side of the legend dynamically shows the range statuses occuring in the shown interaction. These are the possible range statuses:

sourceExp

Interacting with the widget

Hover over a feature to see more information in a tooltip.
sourceExp

To display a single interacting region click on it and click again to display all interacting regions.
Displaying all interacting regionsDisplaying one interacting region
sourceExpsourceExp
What is this view?

Dynamic molecular interaction data

This section shows the graphical representation of dynamic molecular interactions. By default it displays all the interactions from one experiment using radio buttons to allow users to highlight interactions in different variable conditions.
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v.4.1.3



MIQL Syntax Reference

Help: Searches in IntAct

To do a search you can use the Molecular Interaction Query Language (MIQL), which is based on Lucene's syntax.
  • Search based on exact word matches.
    • BRCA2 will not match BRCA2B
    • Association will retrieve both physical association and association
    • To retrieve all isoforms of P12345, use P12345*
  • Search will recognize ontologies and synonyms.
    • Eukaryota will retrieve all children of Eukaryota using the Uniprot taxonomy
    • affinity techniques will match affinity technology because it is affinity techniques is a synonym of affinity technology in the PSI-MI ontology
  • Default fields are used when no field is specified (simple search) :
    • Interactor id, alias
    • Interactor species
    • Interaction id
    • Publication id, first author
    • Interaction type
    • Interaction detection method
    • Interactor xrefs (GO, uniprot secondary xrefs, ...)
    • Interaction xrefs (GO, ...)
    .
    For instance, if you put 'P12345' in the simple query box, this will mean the same as identifier:P12345 OR pubid:P12345 OR pubauth:P12345 OR species:P12345 OR type:P12345 OR detmethod:P12345 OR interaction_id:P12345
  • Use OR or space ' ' to search for ANY of the terms in a field
  • Use AND if you want to search for those interactions where ALL of your terms are found
  • Use quotes (") if you look for a specific phrase (group of terms that must be searched together) or terms containing special characters that may otherwise be interpreted by our query engine (eg. ':' in a GO term)
  • Use parenthesis for complex queries (e.g. '(XXX OR YYY) AND ZZZ')
  • Wildcards (*,?) can be used between letters in a term or at the end of terms to do fuzzy queries,
    but never at the beginning of a term
  • Optionally, you can prepend a symbol in from of your term.
    • + (plus): include this term. Equivalent to AND. e.g. +P12345
    • - (minus): do not include this term. Equivalent to NOT. e.g. -P12345
    • Nothing in front of the term. Equivalent to OR. e.g. P12345

MIQL fields

You can find more information about the Molecular Interactions Query Language (MIQL) defined for PSICQUIC Here
Field NameSearches onExample
idAIdentifier AidA:P74565
idBIdentifier BidB:P74565
idIdentifiers (A or B)id:P74565
aliasAliases (A or B)alias:(KHDRBS1 OR HCK)
identifiersIdentifiers and Aliases undistinctivelyidentifier:P74565
pubauthPublication 1st author(s)pubauth:scott
pubidPublication Identifier(s)pubid:(10837477 OR 12029088)
taxidATax ID interactor A: be it the tax ID or the species nametaxidA:mouse
taxidBTax ID interactor B: be it the tax ID or species nametaxidB:9606
speciesSpecies. Tax ID A or Tax ID Bspecies:human
typeInteraction type(s)type:"physical interaction"
detmethodInteraction Detection method(s)detmethod:"two hybrid*"
interaction_idInteraction identifier(s)interaction_id:EBI-761050
pbioroleABiological role(s) interactor ApbioroleA:enzyme
pbioroleBBiological role(s) interactor BpbioroleB:enzyme
pbioroleBiological role(s) interactor (A or B)pbiorole:enzyme
ptypeAInteractor type AptypeA:protein
ptypeBInteractor type BptypeB:protein
ptypeInteractor type (A or B)ptype:protein
pxrefAInteractor xref ApxrefA:"GO:0005794"
pxrefBInteractor xref BpxrefB:"GO:0005794"
pxrefInteractor xref (A or B)pxref:"GO:0005794"
xrefInteraction xref(s)xref:"GO:0005634"
annotAnnotations/Tags Interactionannotation:"imex curation"
udateLast update of the interactionudate:[20110607 TO 20120906]
negativeBoolean value which is true if an interaction is negativenegative:true
complexComplex Expansion method(s)expansion:spoke
ftypeAFeature type(s) AftypeA:"binding site"
ftypeBFeature type(s) BftypeB:"binding site"
ftypeFeature type(s) (A or B)ftype:"binding site"
pmethodAParticipant identification method(s) ApmethodA:"western blot"
pmethodBParticipant identification method(s)) BpmethodB:"western blot"
pmethodParticipant identification method(s) (A or B)pmethod:"western blot"
stcBoolean value to know if Interactor A or B has stoichiometry information.stc:true
paramBoolean value to know if the Interaction has some parameters.param:true

IntAct fields

These field names are specific to IntAct and are not in MIQL definition for PSICQUIC.
Field NameSearches onExample
geneNameGene name for Interactor A or BgeneName:brca2
sourceSource database(s)source:mbinfo
intact-miscoreIntAct MI Score (between 0 and 1), based on number of publications, detection methods and interaction types.intact-miscore:[0.5 TO 1.0]
Search:       Show Advanced Fields »   MIQL syntax reference helpIcon
  • Free text search will look by default for interactor identifier, species, interaction id, detection method, interaction type, publication identifier or author, interactor xrefs, interaction xrefs
  • For a more specific search, use MIQL syntax or advanced search
  • Search based on exact word matches eg. BRCA2 will not match BRCA2B
  • Search for isoforms of 'P12345' by using 'P12345*'
Examples

Publication

Author List: Grant PA., Schieltz D., Pray-Grant MG., Steger DJ., Reese JC., Yates JR., Workman JL.
Journal: Cell (0092-8674)
Year of Publication: 1998
PubMed Id: 9674426
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-

Experiment (1 interaction)

Accession: EBI-73412
Name: grant-1998-1
Host organism: Saccharomyces cerevisiae (Baker's yeast)
Organism: Saccharomyces cerevisiae (Baker's yeast)
Accession: EBI-140

Name: yeasx

Description: Saccharomyces cerevisiae (Baker's yeast)

Cross References:
Database
Identifier
Secondary identifier
Qualifier
yeast
-

Interaction Detection Method: biochemical
Interaction detection method: biochemical
Accession: EBI-608486
Name: biochemical
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
The application of chemical principles and methods to biological experiments to demonstrate an interaction.
Participant Identification Method: protein sequence
Participant identification method: protein sequence
Accession: EBI-78
Name: protein sequence
Description: protein sequence identification
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Single amino acid identification along a protein sequence.
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-

Interaction

Accession: EBI-73405
Name: taf9-taf5-1
Description: saga complex purification
Type: physical association
Interaction type: physical association
Accession: EBI-1813147
Name: physical association
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Interaction between molecules within the same physical complex. Often identified under conditions which suggest that the molecules are in close proximity but not necessarily in direct contact with each other.
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
-
Annotations:
Topic
Text
SAGA complex

Participants (13)

#
Name
Links
Primary Identifier
Aliases
Description
Species
Expression system
Experimental role
Biological role
Interactor type
More...
1
EBI-18868
 logo
dastyLogo
YBR1410
TBP-associated factor 5
TBP-associated factor 90 kDa

[+4]
Transcription initiation factor TFIID subunit 5
Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Organism Details
Accession: EBI-2935809

Name: yeast

Description: Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Cross References:
Database
Identifier
Secondary identifier
Qualifier
baker's yeast

Expressed In Details
Accession:

Name:



-
neutral component
Experimental role: neutral component
Accession: EBI-55
Name: neutral component
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Molecule role in an experimental setting that does not have an embedded asymmetry.
unspecified role
Biological role: unspecified role
Accession: EBI-77781
Name: unspecified role
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Role not specified or not applicable to the data.
protein
Interactor type: protein
Accession: EBI-619654
Name: protein
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
-
Annotations:
Topic
Text
A linear polymer of amino acids joined by peptide bonds in a specific sequence.
Participant: Transcription initiation factor TFIID subunit 5

Participant: Transcription initiation factor TFIID subunit 5

Accession: EBI-73406

Name: EBI-18868


A
Participant: Transcription initiation factor TFIID subunit 5

Participant: Transcription initiation factor TFIID subunit 5

Accession: EBI-73406

Name: EBI-18868

Parameters:
Type
Value
Unit
Base
Exponent
Uncertainty
No records found.
P

Participant: Transcription initiation factor TFIID subunit 5

Participant: Transcription initiation factor TFIID subunit 5

Accession: EBI-73406

Name: EBI-18868

Stoichiometry: 0.0
S
Participant: Transcription initiation factor TFIID subunit 5

Participant: Transcription initiation factor TFIID subunit 5

Accession: EBI-73406

Name: EBI-18868

Features:

F
Participant: Transcription initiation factor TFIID subunit 5

Participant: Transcription initiation factor TFIID subunit 5

Accession: EBI-73406

Name: EBI-18868

Confidences:
Type
Value
No records found.
C
2
EBI-18876
 logo
dastyLogo
G2985
TBP-associated factor 6
TBP-associated factor 60 kDa

[+3]
Transcription initiation factor TFIID subunit 6
Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Organism Details
Accession: EBI-2935809

Name: yeast

Description: Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Cross References:
Database
Identifier
Secondary identifier
Qualifier
baker's yeast

Expressed In Details
Accession:

Name:



-
neutral component
Experimental role: neutral component
Accession: EBI-55
Name: neutral component
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Molecule role in an experimental setting that does not have an embedded asymmetry.
unspecified role
Biological role: unspecified role
Accession: EBI-77781
Name: unspecified role
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Role not specified or not applicable to the data.
protein
Interactor type: protein
Accession: EBI-619654
Name: protein
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
-
Annotations:
Topic
Text
A linear polymer of amino acids joined by peptide bonds in a specific sequence.
Participant: Transcription initiation factor TFIID subunit 6

Participant: Transcription initiation factor TFIID subunit 6

Accession: EBI-73414

Name: EBI-18876


A
Participant: Transcription initiation factor TFIID subunit 6

Participant: Transcription initiation factor TFIID subunit 6

Accession: EBI-73414

Name: EBI-18876

Parameters:
Type
Value
Unit
Base
Exponent
Uncertainty
No records found.
P

Participant: Transcription initiation factor TFIID subunit 6

Participant: Transcription initiation factor TFIID subunit 6

Accession: EBI-73414

Name: EBI-18876

Stoichiometry: 0.0
S
Participant: Transcription initiation factor TFIID subunit 6

Participant: Transcription initiation factor TFIID subunit 6

Accession: EBI-73414

Name: EBI-18876

Features:

F
Participant: Transcription initiation factor TFIID subunit 6

Participant: Transcription initiation factor TFIID subunit 6

Accession: EBI-73414

Name: EBI-18876

Confidences:
Type
Value
No records found.
C
3
EBI-27500
 logo
dastyLogo
TAF9
TAF17
YMR236W

[+5]
Transcription initiation factor TFIID subunit 9
Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Organism Details
Accession: EBI-2935809

Name: yeast

Description: Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Cross References:
Database
Identifier
Secondary identifier
Qualifier
baker's yeast

Expressed In Details
Accession:

Name:



-
neutral component
Experimental role: neutral component
Accession: EBI-55
Name: neutral component
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Molecule role in an experimental setting that does not have an embedded asymmetry.
unspecified role
Biological role: unspecified role
Accession: EBI-77781
Name: unspecified role
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Role not specified or not applicable to the data.
protein
Interactor type: protein
Accession: EBI-619654
Name: protein
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
-
Annotations:
Topic
Text
A linear polymer of amino acids joined by peptide bonds in a specific sequence.
Participant: Transcription initiation factor TFIID subunit 9

Participant: Transcription initiation factor TFIID subunit 9

Accession: EBI-73415

Name: EBI-27500


A
Participant: Transcription initiation factor TFIID subunit 9

Participant: Transcription initiation factor TFIID subunit 9

Accession: EBI-73415

Name: EBI-27500

Parameters:
Type
Value
Unit
Base
Exponent
Uncertainty
No records found.
P

Participant: Transcription initiation factor TFIID subunit 9

Participant: Transcription initiation factor TFIID subunit 9

Accession: EBI-73415

Name: EBI-27500

Stoichiometry: 0.0
S
Participant: Transcription initiation factor TFIID subunit 9

Participant: Transcription initiation factor TFIID subunit 9

Accession: EBI-73415

Name: EBI-27500

Features:

F
Participant: Transcription initiation factor TFIID subunit 9

Participant: Transcription initiation factor TFIID subunit 9

Accession: EBI-73415

Name: EBI-27500

Confidences:
Type
Value
No records found.
C
4
EBI-18889
 logo
dastyLogo
p25
TAF25
TAFII-23

[+7]
Transcription initiation factor TFIID subunit 10
Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Organism Details
Accession: EBI-2935809

Name: yeast

Description: Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Cross References:
Database
Identifier
Secondary identifier
Qualifier
baker's yeast

Expressed In Details
Accession:

Name:



-
neutral component
Experimental role: neutral component
Accession: EBI-55
Name: neutral component
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Molecule role in an experimental setting that does not have an embedded asymmetry.
unspecified role
Biological role: unspecified role
Accession: EBI-77781
Name: unspecified role
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Role not specified or not applicable to the data.
protein
Interactor type: protein
Accession: EBI-619654
Name: protein
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
-
Annotations:
Topic
Text
A linear polymer of amino acids joined by peptide bonds in a specific sequence.
Participant: Transcription initiation factor TFIID subunit 10

Participant: Transcription initiation factor TFIID subunit 10

Accession: EBI-73416

Name: EBI-18889


A
Participant: Transcription initiation factor TFIID subunit 10

Participant: Transcription initiation factor TFIID subunit 10

Accession: EBI-73416

Name: EBI-18889

Parameters:
Type
Value
Unit
Base
Exponent
Uncertainty
No records found.
P

Participant: Transcription initiation factor TFIID subunit 10

Participant: Transcription initiation factor TFIID subunit 10

Accession: EBI-73416

Name: EBI-18889

Stoichiometry: 0.0
S
Participant: Transcription initiation factor TFIID subunit 10

Participant: Transcription initiation factor TFIID subunit 10

Accession: EBI-73416

Name: EBI-18889

Features:

F
Participant: Transcription initiation factor TFIID subunit 10

Participant: Transcription initiation factor TFIID subunit 10

Accession: EBI-73416

Name: EBI-18889

Confidences:
Type
Value
No records found.
C
5
EBI-35097
 logo
dastyLogo
TAF12
TAF61
TAF68

[+6]
Transcription initiation factor TFIID subunit 12
Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Organism Details
Accession: EBI-2935809

Name: yeast

Description: Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Cross References:
Database
Identifier
Secondary identifier
Qualifier
baker's yeast

Expressed In Details
Accession:

Name:



-
neutral component
Experimental role: neutral component
Accession: EBI-55
Name: neutral component
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Molecule role in an experimental setting that does not have an embedded asymmetry.
unspecified role
Biological role: unspecified role
Accession: EBI-77781
Name: unspecified role
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Role not specified or not applicable to the data.
protein
Interactor type: protein
Accession: EBI-619654
Name: protein
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
-
Annotations:
Topic
Text
A linear polymer of amino acids joined by peptide bonds in a specific sequence.
Participant: Transcription initiation factor TFIID subunit 12

Participant: Transcription initiation factor TFIID subunit 12

Accession: EBI-73417

Name: EBI-35097


A
Participant: Transcription initiation factor TFIID subunit 12

Participant: Transcription initiation factor TFIID subunit 12

Accession: EBI-73417

Name: EBI-35097

Parameters:
Type
Value
Unit
Base
Exponent
Uncertainty
No records found.
P

Participant: Transcription initiation factor TFIID subunit 12

Participant: Transcription initiation factor TFIID subunit 12

Accession: EBI-73417

Name: EBI-35097

Stoichiometry: 0.0
S
Participant: Transcription initiation factor TFIID subunit 12

Participant: Transcription initiation factor TFIID subunit 12

Accession: EBI-73417

Name: EBI-35097

Features:

F
Participant: Transcription initiation factor TFIID subunit 12

Participant: Transcription initiation factor TFIID subunit 12

Accession: EBI-73417

Name: EBI-35097

Confidences:
Type
Value
No records found.
C
6
EBI-7458
 logo
dastyLogo
YGR252W
GCN5
ADA4

[+1]
Histone acetyltransferase GCN5
Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Organism Details
Accession: EBI-2935809

Name: yeast

Description: Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Cross References:
Database
Identifier
Secondary identifier
Qualifier
baker's yeast

Expressed In Details
Accession:

Name:



-
neutral component
Experimental role: neutral component
Accession: EBI-55
Name: neutral component
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Molecule role in an experimental setting that does not have an embedded asymmetry.
unspecified role
Biological role: unspecified role
Accession: EBI-77781
Name: unspecified role
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Role not specified or not applicable to the data.
protein
Interactor type: protein
Accession: EBI-619654
Name: protein
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
-
Annotations:
Topic
Text
A linear polymer of amino acids joined by peptide bonds in a specific sequence.
Participant: Histone acetyltransferase GCN5

Participant: Histone acetyltransferase GCN5

Accession: EBI-73418

Name: EBI-7458


A
Participant: Histone acetyltransferase GCN5

Participant: Histone acetyltransferase GCN5

Accession: EBI-73418

Name: EBI-7458

Parameters:
Type
Value
Unit
Base
Exponent
Uncertainty
No records found.
P

Participant: Histone acetyltransferase GCN5

Participant: Histone acetyltransferase GCN5

Accession: EBI-73418

Name: EBI-7458

Stoichiometry: 0.0
S
Participant: Histone acetyltransferase GCN5

Participant: Histone acetyltransferase GCN5

Accession: EBI-73418

Name: EBI-7458

Features:

F
Participant: Histone acetyltransferase GCN5

Participant: Histone acetyltransferase GCN5

Accession: EBI-73418

Name: EBI-7458

Confidences:
Type
Value
No records found.
C
7
EBI-8287
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YPL254W
HFI1
ADA1

[+1]
Transcriptional coactivator HFI1/ADA1
Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Organism Details
Accession: EBI-2935809

Name: yeast

Description: Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Cross References:
Database
Identifier
Secondary identifier
Qualifier
baker's yeast

Expressed In Details
Accession:

Name:



-
neutral component
Experimental role: neutral component
Accession: EBI-55
Name: neutral component
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Molecule role in an experimental setting that does not have an embedded asymmetry.
unspecified role
Biological role: unspecified role
Accession: EBI-77781
Name: unspecified role
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Role not specified or not applicable to the data.
protein
Interactor type: protein
Accession: EBI-619654
Name: protein
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
-
Annotations:
Topic
Text
A linear polymer of amino acids joined by peptide bonds in a specific sequence.
Participant: Transcriptional coactivator HFI1/ADA1

Participant: Transcriptional coactivator HFI1/ADA1

Accession: EBI-73419

Name: EBI-8287


A
Participant: Transcriptional coactivator HFI1/ADA1

Participant: Transcriptional coactivator HFI1/ADA1

Accession: EBI-73419

Name: EBI-8287

Parameters:
Type
Value
Unit
Base
Exponent
Uncertainty
No records found.
P

Participant: Transcriptional coactivator HFI1/ADA1

Participant: Transcriptional coactivator HFI1/ADA1

Accession: EBI-73419

Name: EBI-8287

Stoichiometry: 0.0
S
Participant: Transcriptional coactivator HFI1/ADA1

Participant: Transcriptional coactivator HFI1/ADA1

Accession: EBI-73419

Name: EBI-8287

Features:

F
Participant: Transcriptional coactivator HFI1/ADA1

Participant: Transcriptional coactivator HFI1/ADA1

Accession: EBI-73419

Name: EBI-8287

Confidences:
Type
Value
No records found.
C
8
EBI-2186
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D9461.33
YDR448W
ADA2
Transcriptional adapter 2
Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Organism Details
Accession: EBI-2935809

Name: yeast

Description: Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Cross References:
Database
Identifier
Secondary identifier
Qualifier
baker's yeast

Expressed In Details
Accession:

Name:



-
neutral component
Experimental role: neutral component
Accession: EBI-55
Name: neutral component
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Molecule role in an experimental setting that does not have an embedded asymmetry.
unspecified role
Biological role: unspecified role
Accession: EBI-77781
Name: unspecified role
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Role not specified or not applicable to the data.
protein
Interactor type: protein
Accession: EBI-619654
Name: protein
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
-
Annotations:
Topic
Text
A linear polymer of amino acids joined by peptide bonds in a specific sequence.
Participant: Transcriptional adapter 2

Participant: Transcriptional adapter 2

Accession: EBI-73420

Name: EBI-2186


A
Participant: Transcriptional adapter 2

Participant: Transcriptional adapter 2

Accession: EBI-73420

Name: EBI-2186

Parameters:
Type
Value
Unit
Base
Exponent
Uncertainty
No records found.
P

Participant: Transcriptional adapter 2

Participant: Transcriptional adapter 2

Accession: EBI-73420

Name: EBI-2186

Stoichiometry: 0.0
S
Participant: Transcriptional adapter 2

Participant: Transcriptional adapter 2

Accession: EBI-73420

Name: EBI-2186

Features:

F
Participant: Transcriptional adapter 2

Participant: Transcriptional adapter 2

Accession: EBI-73420

Name: EBI-2186

Confidences:
Type
Value
No records found.
C
9
EBI-2192
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SWI7
Transcriptional adapter 3
NGG1

[+3]
Chromatin-remodeling complexes subunit NGG1
Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Organism Details
Accession: EBI-2935809

Name: yeast

Description: Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Cross References:
Database
Identifier
Secondary identifier
Qualifier
baker's yeast

Expressed In Details
Accession:

Name:



-
neutral component
Experimental role: neutral component
Accession: EBI-55
Name: neutral component
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Molecule role in an experimental setting that does not have an embedded asymmetry.
unspecified role
Biological role: unspecified role
Accession: EBI-77781
Name: unspecified role
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Role not specified or not applicable to the data.
protein
Interactor type: protein
Accession: EBI-619654
Name: protein
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
-
Annotations:
Topic
Text
A linear polymer of amino acids joined by peptide bonds in a specific sequence.
Participant: Chromatin-remodeling complexes subunit NGG1

Participant: Chromatin-remodeling complexes subunit NGG1

Accession: EBI-73421

Name: EBI-2192


A
Participant: Chromatin-remodeling complexes subunit NGG1

Participant: Chromatin-remodeling complexes subunit NGG1

Accession: EBI-73421

Name: EBI-2192

Parameters:
Type
Value
Unit
Base
Exponent
Uncertainty
No records found.
P

Participant: Chromatin-remodeling complexes subunit NGG1

Participant: Chromatin-remodeling complexes subunit NGG1

Accession: EBI-73421

Name: EBI-2192

Stoichiometry: 0.0
S
Participant: Chromatin-remodeling complexes subunit NGG1

Participant: Chromatin-remodeling complexes subunit NGG1

Accession: EBI-73421

Name: EBI-2192

Features:

F
Participant: Chromatin-remodeling complexes subunit NGG1

Participant: Chromatin-remodeling complexes subunit NGG1

Accession: EBI-73421

Name: EBI-2192

Confidences:
Type
Value
No records found.
C
10
EBI-17921
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Positive regulator of Ty transcription
SPT3
YDR392W

[+1]
Protein SPT3
Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Organism Details
Accession: EBI-2935809

Name: yeast

Description: Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Cross References:
Database
Identifier
Secondary identifier
Qualifier
baker's yeast

Expressed In Details
Accession:

Name:



-
neutral component
Experimental role: neutral component
Accession: EBI-55
Name: neutral component
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Molecule role in an experimental setting that does not have an embedded asymmetry.
unspecified role
Biological role: unspecified role
Accession: EBI-77781
Name: unspecified role
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Role not specified or not applicable to the data.
protein
Interactor type: protein
Accession: EBI-619654
Name: protein
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
-
Annotations:
Topic
Text
A linear polymer of amino acids joined by peptide bonds in a specific sequence.
Participant: Protein SPT3

Participant: Protein SPT3

Accession: EBI-73422

Name: EBI-17921


A
Participant: Protein SPT3

Participant: Protein SPT3

Accession: EBI-73422

Name: EBI-17921

Parameters:
Type
Value
Unit
Base
Exponent
Uncertainty
No records found.
P

Participant: Protein SPT3

Participant: Protein SPT3

Accession: EBI-73422

Name: EBI-17921

Stoichiometry: 0.0
S
Participant: Protein SPT3

Participant: Protein SPT3

Accession: EBI-73422

Name: EBI-17921

Features:

F
Participant: Protein SPT3

Participant: Protein SPT3

Accession: EBI-73422

Name: EBI-17921

Confidences:
Type
Value
No records found.
C
11
EBI-17958
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YBR0739
YBR081C
SPT7
Transcriptional activator SPT7
Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Organism Details
Accession: EBI-2935809

Name: yeast

Description: Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Cross References:
Database
Identifier
Secondary identifier
Qualifier
baker's yeast

Expressed In Details
Accession:

Name:



-
neutral component
Experimental role: neutral component
Accession: EBI-55
Name: neutral component
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Molecule role in an experimental setting that does not have an embedded asymmetry.
unspecified role
Biological role: unspecified role
Accession: EBI-77781
Name: unspecified role
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Role not specified or not applicable to the data.
protein
Interactor type: protein
Accession: EBI-619654
Name: protein
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
-
Annotations:
Topic
Text
A linear polymer of amino acids joined by peptide bonds in a specific sequence.
Participant: Transcriptional activator SPT7

Participant: Transcriptional activator SPT7

Accession: EBI-73423

Name: EBI-17958


A
Participant: Transcriptional activator SPT7

Participant: Transcriptional activator SPT7

Accession: EBI-73423

Name: EBI-17958

Parameters:
Type
Value
Unit
Base
Exponent
Uncertainty
No records found.
P

Participant: Transcriptional activator SPT7

Participant: Transcriptional activator SPT7

Accession: EBI-73423

Name: EBI-17958

Stoichiometry: 0.0
S
Participant: Transcriptional activator SPT7

Participant: Transcriptional activator SPT7

Accession: EBI-73423

Name: EBI-17958

Features:

F
Participant: Transcriptional activator SPT7

Participant: Transcriptional activator SPT7

Accession: EBI-73423

Name: EBI-17958

Confidences:
Type
Value
No records found.
C
12
EBI-17964
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L2144
YLR055C
SPT8
Transcription factor SPT8
Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Organism Details
Accession: EBI-2935809

Name: yeast

Description: Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Cross References:
Database
Identifier
Secondary identifier
Qualifier
baker's yeast

Expressed In Details
Accession:

Name:



-
neutral component
Experimental role: neutral component
Accession: EBI-55
Name: neutral component
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Molecule role in an experimental setting that does not have an embedded asymmetry.
unspecified role
Biological role: unspecified role
Accession: EBI-77781
Name: unspecified role
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Role not specified or not applicable to the data.
protein
Interactor type: protein
Accession: EBI-619654
Name: protein
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
-
Annotations:
Topic
Text
A linear polymer of amino acids joined by peptide bonds in a specific sequence.
Participant: Transcription factor SPT8

Participant: Transcription factor SPT8

Accession: EBI-73424

Name: EBI-17964


A
Participant: Transcription factor SPT8

Participant: Transcription factor SPT8

Accession: EBI-73424

Name: EBI-17964

Parameters:
Type
Value
Unit
Base
Exponent
Uncertainty
No records found.
P

Participant: Transcription factor SPT8

Participant: Transcription factor SPT8

Accession: EBI-73424

Name: EBI-17964

Stoichiometry: 0.0
S
Participant: Transcription factor SPT8

Participant: Transcription factor SPT8

Accession: EBI-73424

Name: EBI-17964

Features:

F
Participant: Transcription factor SPT8

Participant: Transcription factor SPT8

Accession: EBI-73424

Name: EBI-17964

Confidences:
Type
Value
No records found.
C
13
EBI-17751
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YOL148C
SPT20
ADA5
Transcription factor SPT20
Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Organism Details
Accession: EBI-2935809

Name: yeast

Description: Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Cross References:
Database
Identifier
Secondary identifier
Qualifier
baker's yeast

Expressed In Details
Accession:

Name:



-
neutral component
Experimental role: neutral component
Accession: EBI-55
Name: neutral component
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Molecule role in an experimental setting that does not have an embedded asymmetry.
unspecified role
Biological role: unspecified role
Accession: EBI-77781
Name: unspecified role
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
Annotations:
Topic
Text
Role not specified or not applicable to the data.
protein
Interactor type: protein
Accession: EBI-619654
Name: protein
Cross References:
Database
Identifier
Secondary identifier
Qualifier
-
-
-
Annotations:
Topic
Text
A linear polymer of amino acids joined by peptide bonds in a specific sequence.
Participant: Transcription factor SPT20

Participant: Transcription factor SPT20

Accession: EBI-73425

Name: EBI-17751


A
Participant: Transcription factor SPT20

Participant: Transcription factor SPT20

Accession: EBI-73425

Name: EBI-17751

Parameters:
Type
Value
Unit
Base
Exponent
Uncertainty
No records found.
P

Participant: Transcription factor SPT20

Participant: Transcription factor SPT20

Accession: EBI-73425

Name: EBI-17751

Stoichiometry: 0.0
S
Participant: Transcription factor SPT20

Participant: Transcription factor SPT20

Accession: EBI-73425

Name: EBI-17751

Features:

F
Participant: Transcription factor SPT20

Participant: Transcription factor SPT20

Accession: EBI-73425

Name: EBI-17751

Confidences:
Type
Value
No records found.
C

Legend:
A
Annotation and Cross Reference  
P
Experimental Parameter   
S
Stoichiometry   
F
Experimental Feature
C
Participant Confidence