FB2024_02 , released April 23, 2024
Gene: Dmel\Bap60
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General Information
Symbol
Dmel\Bap60
Species
D. melanogaster
Name
Brahma associated protein 60kD
Annotation Symbol
CG4303
Feature Type
protein_coding_gene
FlyBase ID
FBgn0025463
Gene Model Status
Current
Stock Availability
10 publicly available
Gene Summary
Brahma associated protein 60kD (Bap60) encodes a protein required for Brahma complex function. It represses neuroblast proliferation and regulates heterochromatin assembly. [Date last reviewed: 2019-08-01] (FlyBase Gene Snapshot)
All Summaries
Key Links
Genomic Location
Cytogenetic map
11E1-11E1
Sequence location
Recombination map
1-42
RefSeq locus
NC_004354 REGION:13157445..13159508
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
PopFly
Function
Gene Ontology (GO) Annotations (16 terms)
Molecular Function (7 terms)
Terms Based on Experimental Evidence (6 terms)
CV Term
Evidence
References
enables DNA binding
inferred from direct assay
(Möller et al., 2005)
enables myosin binding
inferred from physical interaction with FLYBASE:Myo10A; FB:FBgn0263705
(Liu et al., 2008)
enables protein binding
inferred from physical interaction with FLYBASE:mor; FB:FBgn0002783
(Kal et al., 2000)
enables protein domain specific binding
inferred from physical interaction with UniProtKB:Q9VQ56
(Koe et al., 2014)
enables RNA polymerase II-specific DNA-binding transcription factor binding
inferred from physical interaction with FLYBASE:sisA; FB:FBgn0003411
(Möller et al., 2005)
inferred from physical interaction with FLYBASE:sc; FB:FBgn0004170
(Möller et al., 2005)
contributes_to transcription coactivator activity
inferred from mutant phenotype
(Bonnay et al., 2014)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
enables transcription coregulator activity
inferred from biological aspect of ancestor with PANTHER:PTN001014539
(GO Reference Genome Project, 2011-)
Biological Process (5 terms)
Terms Based on Experimental Evidence (5 terms)
CV Term
Evidence
References
involved_in negative regulation of neuroblast proliferation
inferred from mutant phenotype
(Koe et al., 2014)
involved_in positive regulation of DNA-templated transcription
inferred from direct assay
(Kal et al., 2000)
involved_in positive regulation of gene expression
inferred from genetic interaction with FLYBASE:brm; FB:FBgn0000212
(Möller et al., 2005)
involved_in positive regulation of heterochromatin formation
inferred from mutant phenotype
(Möller et al., 2005)
involved_in regulation of transcription by RNA polymerase II
inferred from mutant phenotype
(Bonnay et al., 2014)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
involved_in regulation of transcription by RNA polymerase II
inferred from biological aspect of ancestor with PANTHER:PTN000353891
(GO Reference Genome Project, 2011-)
Cellular Component (4 terms)
Terms Based on Experimental Evidence (3 terms)
CV Term
Evidence
References
part_of brahma complex
inferred from direct assay
(Barish et al., 2020, Chalkley et al., 2008, Mohrmann et al., 2004, Kal et al., 2000)
part_of euchromatin
inferred from direct assay
(Bonnay et al., 2014)
located_in nucleus
inferred from direct assay
(Mohrmann et al., 2004)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
is_active_in nucleus
inferred from biological aspect of ancestor with PANTHER:PTN000353890
(GO Reference Genome Project, 2011-)
part_of SWI/SNF complex
inferred from biological aspect of ancestor with PANTHER:PTN000353891
(GO Reference Genome Project, 2011-)
Gene Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
Summaries
Gene Snapshot
Brahma associated protein 60kD (Bap60) encodes a protein required for Brahma complex function. It represses neuroblast proliferation and regulates heterochromatin assembly. [Date last reviewed: 2019-08-01]
Gene Group (FlyBase)
BRAHMA ASSOCIATED PROTEINS COMPLEX -
The Brahma associated proteins (BAP) complex is an ATP-dependent chromatin remodeling complex. (Adapted from FBrf0192510.)
POLYBROMO-CONTAINING BRAHMA ASSOCIATED PROTEINS COMPLEX -
Brahma (BRM) complexes are ATP-dependent chromatin remodeling complexes. The Polybromo-containing Brahma associated proteins (PBAP) complex is distinguished by the presence of polybromo and Bap170 subunits. (Adapted from FBrf0192510.)
NON-CANONICAL BRAHMA ASSOCIATED PROTEINS COMPLEX -
Brahma (BRM) complexes are ATP-dependent chromatin remodeling complexes. The non-canonical BAP (ncBAP) complex is distinguished by the presence of a Bicra subunit. (Adapted from FBrf0247407.)
Protein Function (UniProtKB)
Involved in the recruitment and site-specific anchoring of the Brahma complex at specific promoter sites (PubMed:16083904, PubMed:24618901). The Brahma complex is a multiprotein complex which is the equivalent of the yeast SWI/SNF complex and acts by remodeling the chromatin by catalyzing an ATP-dependent alteration in the structure of nucleosomal DNA (PubMed:16083904, PubMed:24618901). This complex can both serve as a transcriptional coactivator or corepressor, depending on the context (PubMed:16083904). Participates in X-chromosomal dosage compensation (PubMed:16083904). Participates in neurogenesis (PubMed:16083904, PubMed:24618901).
(UniProt, Q9VYG2)
Gene Model and Products
Number of Transcripts
1
Number of Unique Polypeptides
1

Please see the JBrowse view of Dmel\Bap60 for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)
Isoform displayed:
Pfam protein domains
InterPro name
classification
start
end
Protein Domains (via SMART)
Isoform displayed:
SMART protein domains
InterPro name
classification
start
end
Structure
Protein 3D structure   (Predicted by AlphaFold)   (AlphaFold entry Q9VYG2)

If you don't see a structure in the viewer, refresh your browser.
Model Confidence:
  • Very high (pLDDT > 90)
  • Confident (90 > pLDDT > 70)
  • Low (70 > pLDDT > 50)
  • Very low (pLDDT < 50)

AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

Experimentally Determined Structures
Crossreferences
Comments on Gene Model

Gene model reviewed during 5.50

Sequence Ontology: Class of Gene
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
Bap60-RA
FBtr0073741
NM_078588
1936
515
Additional Transcript Data and Comments
Reported size (kB)

2.018 (sequence analysis)

(Papoulas et al., 1998)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
UniProt
RefSeq ID
GenBank
Bap60-PA
FBpp0073572
58.2
515
9.84
Q9VYG2
NP_511143
AAF48235
Polypeptides with Identical Sequences

There is only one protein coding transcript and one polypeptide associated with this gene

Additional Polypeptide Data and Comments
Reported size (kDa)

515 (aa)

(Papoulas et al., 1998)
Comments
External Data
Subunit Structure (UniProtKB)

There are 2 distinct Brahma complexes in the fruit fly, the Brahma-associated proteins (BAP) and Polybromo-containing BAP (PBAP) complexes, which are composed of common subunits Brm, Mor, Snr1/Bap45, Bap111/Dalo, Bap55, Bap60 and Act42A/Bap47, and additional signature subunits osa in the BAP complex and Polybromo and Bap170 in the PBAP complex (PubMed:15060132). Interacts with sisA and sc (PubMed:16083904). Interacts with mor (PubMed:10809665). Interacts with p53 (PubMed:20308539). Interacts with erm (via N-terminal) (PubMed:24618901). Interacts with akirin; interaction is immune stimulation-dependent; activates selected Rel target gene promoters (PubMed:25180232).

(UniProt, Q9VYG2)
Crossreferences
InterPro - A database of protein families, domains and functional sites
Linkouts
Sequences Consistent with the Gene Model
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Bap60 using the Feature Mapper tool.

External Data
Crossreferences
Linkouts
Expression Data
Testis-specificity index

The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).

-0.44

Transcript Expression
in situ
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage 1 -- 3
organism

Comment: maternally deposited

(Fisher et al., 2012)
embryonic stage 4
organism | ubiquitous
(Möller et al., 2005)
embryonic stage 4 -- 6
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 7 -- 8
antennal anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
central brain anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
dorsal head epidermis anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
visual anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
anterior endoderm anlage
(Fisher et al., 2012)
head mesoderm
(Fisher et al., 2012)
hindgut anlage
(Fisher et al., 2012)
organism | ubiquitous
(Fisher et al., 2012)
posterior endoderm
(Fisher et al., 2012)
trunk mesoderm
(Fisher et al., 2012)
ventral ectoderm
(Fisher et al., 2012)
embryonic stage 9 -- 10
head mesoderm
(Fisher et al., 2012)
inclusive hindgut primordium
(Fisher et al., 2012)
organism | ubiquitous
(Fisher et al., 2012)
trunk mesoderm
(Fisher et al., 2012)
embryonic stage 11 -- 12
anterior midgut primordium
(Fisher et al., 2012)
central brain primordium
(Fisher et al., 2012)
embryonic central brain glial cell
(Fisher et al., 2012)
embryonic central brain neuron
(Fisher et al., 2012)
hindgut proper primordium
(Fisher et al., 2012)
organism | ubiquitous
(Fisher et al., 2012)
posterior midgut primordium
(Fisher et al., 2012)
procephalic neuroblast
(Fisher et al., 2012)
ventral nerve cord primordium
(Fisher et al., 2012)
embryonic stage 13 -- 16
embryonic brain
(Fisher et al., 2012)
embryonic central brain neuron
(Fisher et al., 2012)
embryonic hindgut
(Fisher et al., 2012)
embryonic/larval lymph gland
(Fisher et al., 2012)
embryonic/larval midgut
(Fisher et al., 2012)
embryonic/larval nervous system
(Fisher et al., 2012)
lateral cord neuron
(Fisher et al., 2012)
larval ventral nerve cord
(Fisher et al., 2012)
embryonic stage 14
larval ventral nerve cord
(Möller et al., 2005)
embryonic brain
(Möller et al., 2005)
Additional Descriptive Data

Bap60 transcripts are ubiquitous at the blastoderm stage. Zygotic transcripts become predominant at the extended germ band stage and are restricted to the ventral nerve cord and brain after germ band retraction.

(Möller et al., 2005)
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
mass spectroscopy
Stage
Tissue/Position (including subcellular localization)
Reference
day 5 of adulthood & male -- day 7 of adulthood & male
spermatozoon
(Wasbrough et al., 2010)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
part_of brahma complex
inferred from direct assay
(Barish et al., 2020, Chalkley et al., 2008, Mohrmann et al., 2004, Kal et al., 2000)
part_of euchromatin
inferred from direct assay
(Bonnay et al., 2014)
located_in nucleus
inferred from direct assay
(Mohrmann et al., 2004)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Bap60 in JBrowse
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
Bulk Downloads
RNA-Seq RPKM values for all genes
Reference
See Gelbart and Emmert, 2013 for analysis details and data files for all genes.
Developmental Proteome: Life Cycle
Developmental Proteome: Embryogenesis
External Data and Images
Linkouts
BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
FlyExpress - Embryonic expression images (BDGP data)
  • Stages(s) 4-6
  • Stages(s) 7-8
  • Stages(s) 9-10
  • Stages(s) 11-12
  • Stages(s) 13-16
FlyBase Wiki
Image Based Resources
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 4 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 8 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of Bap60
Transgenic constructs containing regulatory region of Bap60
Aberrations (Deficiencies and Duplications) ( 2 )
Variants
Variant Molecular Consequences
Alleles Representing Disease-Implicated Variants
Phenotypes
Orthologs
Downloads
Download All DIOPT Orthologs
Human Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
Domainoid
eggNOG
Hieranoid
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Complementation?
Transgene?
Homo sapiens (Human) (3)
Hsap\SMARCD1
14 of 14
Yes
Yes
Hsap\SMARCD2
12 of 14
No
Yes
Hsap\SMARCD3
12 of 14
No
Yes
Model Organism Orthologs (via DIOPT v9.1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
Domainoid
eggNOG
Hieranoid
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Complementation?
Transgene?
Rattus norvegicus (Norway rat) (3)
Rnor\Smarcd1
13 of 14
Yes
Yes
Rnor\Smarcd3
12 of 14
No
Yes
Rnor\Smarcd2
11 of 14
No
Yes
Mus musculus (laboratory mouse) (3)
Mmus\Smarcd1
14 of 14
Yes
Yes
Mmus\Smarcd2
11 of 14
No
Yes
Mmus\Smarcd3
11 of 14
No
Yes
Xenopus tropicalis (Western clawed frog) (5)
Xtro\smarcd1
8 of 13
Yes
Yes
Xtro\asic1
6 of 13
No
Yes
Xtro\smarcd2
6 of 13
No
Yes
Xtro\smarcd3
4 of 13
No
Yes
Xtro\pdk3
1 of 13
No
No
Danio rerio (Zebrafish) (4)
Drer\smarcd1
14 of 14
Yes
Yes
Drer\smarcd3b
12 of 14
No
Yes
Drer\smarcd2
11 of 14
No
Yes
Drer\smarcd3a
11 of 14
No
Yes
Caenorhabditis elegans (Nematode, roundworm) (4)
Cele\ham-3
14 of 14
Yes
Yes
Cele\swsn-2.2
14 of 14
Yes
Yes
Cele\K03B8.4
4 of 14
No
Yes
Cele\T24G10.2
2 of 14
No
No
Anopheles gambiae (African malaria mosquito) (3)
Agam\AgaP_AGAP005336
12 of 12
Yes
Yes
Agam\AgaP_AGAP000923
10 of 12
No
Yes
Agam\AgaP_AGAP004492
2 of 12
No
No
Arabidopsis thaliana (thale-cress) (19)
Atha\AT3G01890
13 of 13
Yes
Yes
Atha\CHC1
13 of 13
Yes
Yes
Atha\AT1G31760
2 of 13
No
No
Atha\AT1G49520
2 of 13
No
No
Atha\AT2G14880
2 of 13
No
No
Atha\AT2G18090
2 of 13
No
Yes
Atha\AT2G35605
2 of 13
No
No
Atha\AT3G03590
2 of 13
No
No
Atha\AT3G19080
2 of 13
No
No
Atha\AT3G48600
2 of 13
No
No
Atha\AT3G51120
2 of 13
No
Yes
Atha\AT4G22360
2 of 13
No
No
Atha\AT4G26810
2 of 13
No
No
Atha\AT4G34290
2 of 13
No
No
Atha\AT5G08430
2 of 13
No
Yes
Atha\NERD
2 of 13
No
No
Atha\AT1G17510
1 of 13
No
No
Atha\AT5G23480
1 of 13
No
Yes
Atha\AT5G63700
1 of 13
No
Yes
Saccharomyces cerevisiae (Brewer's yeast) (4)
Scer\SNF12
10 of 13
Yes
Yes
Scer\RSC6
9 of 13
No
Yes
Scer\TRI1
3 of 13
No
No
Scer\UAF30
3 of 13
No
No
Schizosaccharomyces pombe (Fission yeast) (2)
Spom\ssr3
11 of 12
Yes
Yes
Spom\spp27
2 of 12
No
No
Escherichia coli (enterobacterium) (0)
Other Organism Orthologs (via OrthoDB)
Data provided directly from OrthoDB:Bap60. Refer to their site for version information.
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v9.1)
Gene Symbol
Score
Source
Compara
Domainoid
eggNOG
Homologene
Inparanoid
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
SonicParanoid
Alignment
Drosophila melanogaster (Fruit fly) (1)
Non2
4 of 13
Human Disease Associations
FlyBase Human Disease Model Reports
Disease Ontology (DO) Annotations
Models Based on Experimental Evidence ( 2 )
Potential Models Based on Orthology ( 1 )
Modifiers Based on Experimental Evidence ( 0 )
Allele
Disease
Interaction
References
Disease Associations of Human Orthologs (via DIOPT v9.1 and OMIM)
Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.
Homo sapiens (Human)
Gene name
Score
OMIM
OMIM Phenotype
DO term
Complementation?
Transgene?
SMARCD1; SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1
14 of 14
601735
SMARCD2; SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 2
12 of 14
601736
    SMARCD3; SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 3
    12 of 14
    601737
        Functional Complementation Data
        Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.
        Interactions
        Summary of Physical Interactions
        esyN Network Diagram
        Show neighbor-neighbor interactions:
        Show/hide secondary interactors 
        (data from AllianceMine provided by esyN)
        Select Layout:
        Legend:
        Protein
        RNA
        Selected Interactor(s)
        Interactions Browser
        View in Interactions Browser
        Please see the Physical Interaction reports below for full details
        MIST Molecular Interaction Search Tool
        View in MIST tool (external link)
        Please see the Physical Interaction reports below for full details
        protein-protein
        Physical Interaction
        Assay
        References
        Bap60 - Bap111
        anti tag coimmunoprecipitation, protein cross-linking with a bifunctional reagent, Identification by mass spectrometry, experimental knowledge based
        (Mashtalir et al., 2018, Guruharsha et al., 2011)
        Bap60 - Bap55
        anti tag coimmunoprecipitation, Identification by mass spectrometry, experimental knowledge based
        (Barish et al., 2020, Guruharsha et al., 2011)
        Bap60 - Bicra
        anti tag coimmunoprecipitation, Identification by mass spectrometry
        (Barish et al., 2020)
        Bap60 - Brd7-9
        anti tag coimmunoprecipitation, Identification by mass spectrometry
        (Barish et al., 2020)
        Bap60 - CG17002
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - CG3008
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - CG34159
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - CG9922
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - Cdk8
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - Clk
        anti tag coimmunoprecipitation, Identification by mass spectrometry
        (Kwok et al., 2015)
        Bap60 - Cpsf6
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - Elys
        anti bait coimmunoprecipitation, western blot
        (Kuhn et al., 2019)
        Bap60 - Gtpbp2
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - Larp4B
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - MED10
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - MED11
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - MED14
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - MED15
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - MED16
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - MED17
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - MED18
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - MED20
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - MED23
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - MED24
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - MED27
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - MED30
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - MED4
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - MED6
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - MED7
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - MED8
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - Myo10A
        two hybrid
        (Liu et al., 2008)
        Bap60 - Naa15-16
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - Psi
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - Ptip
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - Sec13
        anti bait coimmunoprecipitation, western blot
        (Kuhn et al., 2019)
        Bap60 - Snr1
        anti tag coimmunoprecipitation, protein cross-linking with a bifunctional reagent, Identification by mass spectrometry, experimental knowledge based
        (Barish et al., 2020, Mashtalir et al., 2018, Guruharsha et al., 2011)
        Bap60 - Taf1
        ion exchange chromatography, molecular sieving, western blot
        (Vorobyeva et al., 2009)
        Bap60 - Taf9
        ion exchange chromatography, molecular sieving, western blot
        (Vorobyeva et al., 2009)
        Bap60 - Tbp
        ion exchange chromatography, molecular sieving, western blot
        (Vorobyeva et al., 2009)
        Bap60 - Trl
        anti tag coimmunoprecipitation, peptide massfingerprinting
        (Nakayama et al., 2012)
        Bap60 - Usp10
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - akirin
        anti tag coimmunoprecipitation, anti tag western blot, two hybrid, anti bait coimmunoprecipitation, western blot
        (Cammarata-Mouchtouris et al., 2020, Bonnay et al., 2014)
        Bap60 - boca
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - brm
        anti bait coimmunoprecipitation, western blot, pull down, ion exchange chromatography, molecular sieving, edman degradation, experimental knowledge based, molecular weight estimation by staining, anti tag coimmunoprecipitation, protein cross-linking with a bifunctional reagent, Identification by mass spectrometry, peptide massfingerprinting
        (Tilly et al., 2021, Barish et al., 2020, Kuhn et al., 2019, Mashtalir et al., 2018, Nakayama et al., 2012, Guruharsha et al., 2011, Mohrmann et al., 2004, Kal et al., 2000, Collins et al., 1999, Papoulas et al., 1998)
        Bap60 - dsh
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - e(y)3
        ion exchange chromatography, molecular sieving, western blot, anti bait coimmunoprecipitation, Identification by mass spectrometry
        (Vorobyeva et al., 2009)
        Bap60 - ebi
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - enc
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - erm
        anti tag coimmunoprecipitation, anti tag western blot
        (Koe et al., 2014)
        Bap60 - ix
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - mor
        far western blotting, autoradiography, experimental knowledge based, ion exchange chromatography, molecular sieving, western blot, anti tag coimmunoprecipitation, protein cross-linking with a bifunctional reagent, Identification by mass spectrometry
        (Barish et al., 2020, Mashtalir et al., 2018, Guruharsha et al., 2011, Vorobyeva et al., 2009, Kal et al., 2000)
        Bap60 - osa
        anti tag coimmunoprecipitation, Identification by mass spectrometry, protein cross-linking with a bifunctional reagent, anti bait coimmunoprecipitation, molecular weight estimation by staining, experimental knowledge based
        (Barish et al., 2020, Mashtalir et al., 2018, Guruharsha et al., 2011, Collins et al., 1999)
        Bap60 - p53
        pull down, autoradiography
        (Lunardi et al., 2010)
        Bap60 - polybromo
        ion exchange chromatography, molecular sieving, western blot, anti bait coimmunoprecipitation
        (Kuhn et al., 2019, Vorobyeva et al., 2009)
        Bap60 - san
        experimental knowledge based
        (Guruharsha et al., 2011)
        Bap60 - sc
        anti tag coimmunoprecipitation, anti tag western blot, pull down, autoradiography
        (Möller et al., 2005)
        Bap60 - sd
        anti bait coimmunoprecipitation, peptide massfingerprinting
        (Jin et al., 2013)
        Bap60 - sisA
        anti tag coimmunoprecipitation, anti tag western blot, pull down, autoradiography
        (Möller et al., 2005)
        Bap60 - stumps
        two hybrid
        (Battersby et al., 2003)
        Summary of Genetic Interactions
        esyN Network Diagram
        Show/hide secondary interactors 
        (data from AllianceMine provided by esyN)
        esyN Network Key:
        Suppression
        Enhancement
        View in Interactions Browser   View in MIST tool (external link)
        Please look at the allele data for full details of the genetic interactions
        Starting gene(s)
        Interaction type
        Interacting gene(s)
        Reference
        Starting gene(s)
        Interaction type
        Interacting gene(s)
        Reference
        Antp
        suppressible
        Bap60
        (Möller et al., 2005)
        brm
        enhanceable
        Bap60
        (Möller et al., 2005)
        brm|trx
        enhanceable
        Bap60
        (Möller et al., 2005)
        mor
        enhanceable
        Bap60
        (Möller et al., 2005)
        External Data
        Subunit Structure (UniProtKB)
        There are 2 distinct Brahma complexes in the fruit fly, the Brahma-associated proteins (BAP) and Polybromo-containing BAP (PBAP) complexes, which are composed of common subunits Brm, Mor, Snr1/Bap45, Bap111/Dalo, Bap55, Bap60 and Act42A/Bap47, and additional signature subunits osa in the BAP complex and Polybromo and Bap170 in the PBAP complex (PubMed:15060132). Interacts with sisA and sc (PubMed:16083904). Interacts with mor (PubMed:10809665). Interacts with p53 (PubMed:20308539). Interacts with erm (via N-terminal) (PubMed:24618901). Interacts with akirin; interaction is immune stimulation-dependent; activates selected Rel target gene promoters (PubMed:25180232).
        (UniProt, Q9VYG2 )
        Linkouts
        BioGRID - A database of protein and genetic interactions.
        DroID - A comprehensive database of gene and protein interactions.
        MIST (genetic) - An integrated Molecular Interaction Database
        MIST (protein-protein) - An integrated Molecular Interaction Database
        Pathways
        Signaling Pathways (FlyBase)
        Metabolic Pathways
        Reactome Metabolic Pathways - An open-source, open access, manually curated and peer-reviewed metabolic pathway database.
        External Data
        Linkouts
        KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.
        Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
        Genomic Location and Detailed Mapping Data
        Chromosome (arm)
        X
        Recombination map
        1-42
        Cytogenetic map
        11E1-11E1
        Sequence location
        FlyBase Computed Cytological Location
        Cytogenetic map
        Evidence for location
        11E1-11E1
        Limits computationally determined from genome sequence between P{EP}EP1461 and P{EP}CG1640EP1626
        Experimentally Determined Cytological Location
        Cytogenetic map
        Notes
        References
        11D5-11D10
        (Papoulas, 1998.6.9)
        11D5-11D10
        (determined by in situ hybridisation)
        (Papoulas et al., 1998)
        Experimentally Determined Recombination Data
        Location

        1-42

        (FlyBase, 2016)

        1-41.7

        (Comeron et al., 2012)
        Left of (cM)
        Right of (cM)
        Notes
        Stocks and Reagents
        Stocks (10)
        Genomic Clones (21)
        cDNA Clones (138)
         

        Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see JBrowse for alignment of the cDNAs and ESTs to the gene model.

        cDNA clones, fully sequenced
        BDGP DGC clones
        Other clones
        Drosophila Genomics Resource Center cDNA clones

        For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

        cDNA Clones, End Sequenced (ESTs)
        BDGP DGC clones
        Other clones
        RNAi and Array Information
        Linkouts
        DRSC - Results frm RNAi screens
        Antibody Information
        Laboratory Generated Antibodies
         

        polyclonal

        (Nakayama et al., 2012)
        Commercially Available Antibodies
         
        Cell Line Information
        Publicly Available Cell Lines
         
          Other Stable Cell Lines
           
            Other Comments

            dsRNA has been made from templates generated with primers directed against this gene. RNAi of Bap60 disrupts the dendritic routing patterns of the ddaD and ddaE neurons, resulting in aberrantly oriented primary dendrites. RNAi also causes defects in muscle, alterations in the number of MD neurons and defects in dendrite morphogenesis.

            (Parrish et al., 2006)

            dsRNA made from templates generated with primers directed against Bap60 that is transfected into S2 treated with Listeria monocytogenes reveals Bap60 to be involved in Listeria monocytogenes intracellular growth and vacuolar escape.

            (Cheng et al., 2005)
            Relationship to Other Genes
            Source for database merge of
            Additional comments

            FlyBase curator comment: the insertion in the "f05782" Exelixis line (PBac{WH}CG12096f05782) was originally assigned to the Bap60 gene in FBrf0179797, resulting in the "Bap60f05782" (FBal0162769) allele. However, FBrf0184340 shows that the insertion is actually within CG12096.

            (Bloomington Drosophila Stock Center, 2004.11.6)
            Nomenclature History
            Source for database identify of
            Nomenclature comments
            Etymology
            Synonyms and Secondary IDs (13)
            Reported As
            Symbol Synonym
            BAF60
            (Schuettengruber et al., 2011)
            BAP60
            (Cenik and Shilatifard, 2021, Innis and Cabot, 2020, Mashtalir et al., 2018, Bonnay et al., 2014, Kingston and Tamkun, 2014, Gan et al., 2010, Clapier and Cairns, 2009, Moshkin et al., 2009, Vorobyeva et al., 2009, Vorobyeva et al., 2009, Nakamura et al., 2008, Soshnikova et al., 2008, Secombe et al., 2007, Bouazoune and Brehm, 2006, Krupp et al., 2005, Brumby et al., 2004, Mohrmann et al., 2004, Still et al., 2004, Taylor-Harding et al., 2004, Moller and Jackle, 2003, Moller and Jackle, 2003, Aalfs and Kingston, 2000, Kal et al., 2000, Sudarsanam and Winston, 2000, Collins et al., 1999, Kingston and Narlikar, 1999, Wade and Wolffe, 1999, Papoulas, 1998.6.9, Papoulas et al., 1998)
            BAPp60
            (Brumby et al., 2002)
            Bap60
            (Erokhin et al., 2023, Zhang et al., 2023, Cammarata-Mouchtouris et al., 2022, Kanca et al., 2022, Molnar et al., 2022, Erokhin et al., 2021, Evans et al., 2021, Keegan and Hughes, 2021, Raun et al., 2021, Barish et al., 2020, Bosch et al., 2020, Cammarata-Mouchtouris et al., 2020, Chetverina et al., 2020, Chubak et al., 2019, Jiang et al., 2019, Kuhn et al., 2019, Nixon et al., 2019, Gene Disruption Project members, 2018-, Tsui et al., 2018, Transgenic RNAi Project members, 2017-, Hong and Choi, 2016, Kumar et al., 2016, Mazina et al., 2016, Mazina et al., 2016, Fischer et al., 2015, Zang et al., 2015, Bonnay et al., 2014, Gonzalez et al., 2014, Hughes et al., 2014, Kim et al., 2014, Jin et al., 2013, Moshkin et al., 2013, Japanese National Institute of Genetics, 2012.5.21, Nakayama et al., 2012, Nowak et al., 2012, Tokusumi et al., 2012, Neumüller et al., 2011, Blanco et al., 2010, Dekanty et al., 2010, Lunardi et al., 2010, Wasbrough et al., 2010, Liu et al., 2008, Zhou et al., 2008, Baeg et al., 2007, Robida et al., 2007, Parrish et al., 2006, Möller et al., 2005)
            CG4303
            (Çiçek et al., 2016, Hong and Choi, 2016, Kumar et al., 2016, Hosono et al., 2015, Tiwari et al., 2015, Bonnay et al., 2014, Ni et al., 2010.12.1, Keleman et al., 2009.8.5, Ni et al., 2008, Gandhi et al., 2007, Klebes et al., 2005, Battersby et al., 2003)
            bap60
            (Tian and Smith-Bolton, 2021, He et al., 2017, Kwok et al., 2015, Tiwari et al., 2015, Bonnay et al., 2014)
            dBAP60
            (Monribot-Villanueva et al., 2017)
            i127
            (Battersby et al., 2003)
            i133
            (Battersby et al., 2003)
            Name Synonyms
            BRM-associated protein 60
            (Papoulas et al., 1998)
            Brahma associated protein 60 kD
            (Davis et al., 2011)
            Brahma associated protein 60kD
            (Liu et al., 2008)
            brahma associated protein 60 kDa
            (Papoulas, 1998.6.9)
            Secondary FlyBase IDs
              Datasets (0)
              Study focus (0)
              Experimental Role
              Project
              Project Type
              Title
              Study result (0)
              Result
              Result Type
              Title
              External Crossreferences and Linkouts ( 43 )
              Sequence Crossreferences
              NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
              GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.
              GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.
              RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.
              UniProt/GCRP - The gene-centric reference proteome (GCRP) provides a 1:1 mapping between genes and UniProt accessions in which a single 'canonical' isoform represents the product(s) of each protein-coding gene.
              UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information
              Other crossreferences
              AlphaFold DB - AlphaFold provides open access to protein structure predictions for the human proteome and other key proteins of interest, to accelerate scientific research.
              BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
              DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species
              EMBL-EBI Single Cell Expression Atlas - Single cell expression across species
              FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data
              FlyMine - An integrated database for Drosophila genomics
              InterPro - A database of protein families, domains and functional sites
              KEGG Genes - Molecular building blocks of life in the genomic space.
              MARRVEL_MODEL - MARRVEL (model organism gene)
              Linkouts
              BioGRID - A database of protein and genetic interactions.
              Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
              DroID - A comprehensive database of gene and protein interactions.
              DRSC - Results frm RNAi screens
              FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
              FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
              Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
              Flygut - An atlas of the Drosophila adult midgut
              FlyMet - A comprehensive tissue-specific metabolomics resource for Drosophila.
              iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
              KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.
              MIST (genetic) - An integrated Molecular Interaction Database
              MIST (protein-protein) - An integrated Molecular Interaction Database
              Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
              Reactome Metabolic Pathways - An open-source, open access, manually curated and peer-reviewed metabolic pathway database.
              References (134)