FlyBase Gene Report: Dmel\Obp28a

General Information

Symbol

Dmel\Obp28a

Species

D. melanogaster

Name

Odorant-binding protein 28a

Annotation Symbol

CG6641

Feature Type

protein_coding_gene

FlyBase ID

FBgn0011283

Gene Model Status

Current

Stock Availability

3 publicly available

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Gene Group
Interactive Fly

Also Known As

Pbprp5, 28a, pbprp-5, Pheromone-binding protein-related protein 5

Key Links

Genomic Location

Cytogenetic map

28A4-28A4

Sequence location

2L:7,496,791..7,497,365 [-]

Recombination map

2-27

RefSeq locus

NT_033779 REGION:7496791..7497365

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse GBrowse

Help me choose

Other Genome Views

The following external sites may use different assemblies or annotations than FlyBase.

Function

GO Summary Ribbons

Gene Ontology (GO) Annotations (5 terms)

Molecular Function (2 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

enables odorant binding

inferred from sequence or structural similarity with FLYBASE:lush; FB:FBgn0020277

(Vieira and Rozas, 2011)

enables pheromone binding

inferred from sequence or structural similarity

(Pikielny et al., 1994)

Biological Process (2 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

involved_in sensory perception of chemical stimulus

inferred from sequence or structural similarity with FLYBASE:lush; FB:FBgn0020277

(Vieira and Rozas, 2011)

involved_in sensory perception of smell

inferred from biological aspect of ancestor with PANTHER:PTN000220814

(assigned by GO_Central )

(Gaudet et al., 2011)

Cellular Component (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

located_in extracellular region

inferred from sequence model

(Vieira and Rozas, 2011)

Gene Group (FlyBase)

ODORANT BINDING PROTEINS

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Group (FlyBase)

ODORANT BINDING PROTEINS -: Odorant Binding Proteins (OBP) are small (10 to 30 kDa) proteins secreted by auxiliary cells surrounding the olfactory receptor neurons. OBPs are characterized by a specific protein domain that comprises six α-helices joined by three disulfide bonds. Although the full function of the OBPs is not well established, it is believed that they may act as molecular carriers that transport odorants and deliver them to the olfactory receptors located on the sensory neurons. (Adapted from FBrf0205523).

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Obp28a 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 New Section

Protein 3D structure (Predicted by AlphaFold) (AlphaFold entry P54195)

If you don't see the viewer to the right, 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.

Comments on Gene Model

Gene model reviewed during 5.44

Gene model reviewed during 5.45

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Obp28a-RA

FBtr0079455

NM_078781

575

143

Additional Transcript Data and Comments

Reported size (kB)

0.493 (longest cDNA)

(Pikielny et al., 1994)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

RefSeq ID

GenBank

Obp28a-PA

FBpp0079083

15.2

143

4.99

NP_523505

AAF52525

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)

143 (aa)

(Pikielny et al., 1994)

Comments

External Data

Crossreferences

InterPro - A database of protein families, domains and functional sites

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

P54195

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Obp28a using the Feature Mapper tool.

External Data

Crossreferences

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

Obp28a_1

Linkouts

Expression Data

Expression Summary Ribbons

Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.

For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 11 -- 12

antennal primordium

(Fisher et al., 2012)

labral sensory complex primordium

(Fisher et al., 2012)

embryonic stage 13 -- 16

embryonic antennal sense organ

(Fisher et al., 2012)

labral sensory complex

(Fisher et al., 2012)

adult stage

third segment of antenna | medial

(Pikielny et al., 1994)

third segment of antenna | posterior

(Pikielny et al., 1994)

basiconic sensillum of antennal segment 3

(Pikielny et al., 1994)

antennal basiconic sensillum ab1

(Larter et al., 2016)

antennal basiconic sensillum ab2

(Larter et al., 2016)

antennal basiconic sensillum ab3

(Larter et al., 2016)

antennal basiconic sensillum ab4

(Larter et al., 2016)

antennal basiconic sensillum ab5

(Larter et al., 2016)

antennal basiconic sensillum ab6

(Larter et al., 2016)

antennal basiconic sensillum ab7

(Larter et al., 2016)

antennal basiconic sensillum ab8

(Larter et al., 2016)

antennal basiconic sensillum ab9

(Larter et al., 2016)

antennal basiconic sensillum ab10

(Larter et al., 2016)

thecogen cell | subset of antennal segment 3 sense organ

(Larter et al., 2016)

tormogen cell | subset of antennal segment 3 sense organ

(Larter et al., 2016)

Additional Descriptive Data

Expressed in antennal basiconic sensillum ab1-10. Observed in both thecogen and tormogen cells. Probably also present in trichogen cells but wasn't directly demonstrated.

(Larter et al., 2016)

Obp28a transcripts are detected in RNA made from appendages but not head or body. Sensilla showing Obp28a expression are mostly on the medial and posterior surface of the antenna, a location which correlates well with the position of sensillum basiconica.

(Pikielny et al., 1994)

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

immunolocalization

Stage

Tissue/Position (including subcellular localization)

Reference

Additional Descriptive Data

Obp28a shows expression ranging from weak to strong within most classes of sensillum basiconicum.

(Shanbhag et al., 2001)

Marker for

Subcellular Localization

CV Term

Evidence

References

Expression Deduced from Reporters

Reporter: P{Obp28a-lacZ.G}

Stage

Tissue/Position (including subcellular localization)

Reference

third instar larval stage

embryonic antennal sense organ

(Galindo and Smith, 2001)

adult stage

antennal sense organ | subset

(Galindo and Smith, 2001)

chemosensory sensory organ of antenna

(Galindo and Smith, 2001)

High-Throughput Expression Data

Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\Obp28a in GBrowse 2

RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region

View exonic expression by developmental stage for Dmel\Obp28a

View exonic expression by tissue for Dmel\Obp28a

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

FBgn0011283

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

34031/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0011283

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0011283

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0011283

Flygut - An atlas of the Drosophila adult midgut

FBgn0011283

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 1 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 2 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Obp28a

Transgenic constructs containing regulatory region of Obp28a

Aberrations (Deficiencies and Duplications) ( 0 )

Inferred from experimentation ( 0 )

Inferred from location ( 0 )

Alleles Representing Disease-Implicated Variants

Phenotypes

For more details about a specific phenotype click on the relevant allele symbol.

Lethality

Allele

partially lethal - majority die, with Scer\GAL4^pnr-MD237

Obp28a^GD392

viable, with Scer\GAL4^Mef2.PR

Obp28a^GD392

Other Phenotypes

Allele

some die during pupal stage, with Scer\GAL4^pnr-MD237

Obp28a^GD392

Phenotype manifest in

Allele

Orthologs

Downloads

Download All DIOPT Orthologs

Human Orthologs (via DIOPT v8.0)

Homo sapiens (Human) (0)

No records found.

Model Organism Orthologs (via DIOPT v8.0)

Mus musculus (laboratory mouse) (0)

No records found.

Rattus norvegicus (Norway rat) (0)

No records found.

Xenopus tropicalis (Western clawed frog) (0)

No records found.

Danio rerio (Zebrafish) (0)

No records found.

Caenorhabditis elegans (Nematode, roundworm) (0)

No records found.

Arabidopsis thaliana (thale-cress) (0)

No records found.

Saccharomyces cerevisiae (Brewer's yeast) (0)

No records found.

Schizosaccharomyces pombe (Fission yeast) (0)

No records found.

Other Organism Orthologs (via OrthoDB)

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v8.0)

Drosophila melanogaster (Fruit fly) (29)

Gene Symbol

Score

Source

Alignment

3 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

2 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

1 of 10

Human Disease Associations

FlyBase Human Disease Model Reports

Disease Model Summary Ribbon

Disease Ontology (DO) Annotations

Models Based on Experimental Evidence ( 0 )

Allele

Disease

Evidence

References

Potential Models Based on Orthology ( 0 )

Human Ortholog

Disease

Evidence

References

Modifiers Based on Experimental Evidence ( 0 )

Allele

Disease

Interaction

References

Disease Associations of Human Orthologs (via DIOPT v8.0 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?

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

Interactions Browser

Summary of Genetic Interactions

esyN Network Diagram

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

External Data

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0011283

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

2-27

Cytogenetic map

28A4-28A4

Sequence location

2L:7,496,791..7,497,365 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

28A4-28A4

Limits computationally determined from genome sequence between P{PZ}cuc¹⁰⁶⁰⁷ and P{EP}EP2419^EP2419&P{EP}EP575

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

28D-28D

(Pikielny, 1994.2.1)

Experimentally Determined Recombination Data

Location

2-27

(FlyBase, 2016)

2-24.3

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (3)

Aberrations including deletions of this gene Aberrations including duplications of this gene

Bloomington

82467

w^*; TI{TI}Obp28a^del

VDRC

v103254

P{KK112672}VIE-260B

v45832

w¹¹¹⁸; P{GD392}v45832

Genomic Clones (27)

Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete

cDNA Clones (1)

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 GBrowse for alignment of the cDNAs and ESTs to the gene model.

cDNA clones, fully sequenced

BDGP DGC clones

IP02631

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.

FBgn0011283

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0011283

GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents

34031

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Other Information

Relationship to Other Genes

Source for database identify of

Source for identity of: Obp28a Pbprp5

(FlyBase, 2009-)

Source for database merge of

Additional comments

FlyBase Curator comment: 'Pbprp5' renamed to 'Obp28a' to rationalize the nomenclature of 'Odorant-binding protein'-encoding genes consistent with the recommendations in FBrf0151704 and FBrf0205523.

(FlyBase, 2009-)

The Obp28a gene may have been derived from the Obp19d gene by retroposition.

(Pan and Zhang, 2009)

Other Comments

Identified as a gene with significant level of mRNA cycling as assessed by expression analysis using high density oligonucleotide arrays with probe generated from adult heads harvested over six time points over the course of a day. Shows alteration in expression in a Clk mutant background.

(McDonald and Rosbash, 2001)

Pbprp5 is one of seven clones that have been identified from subtracted cDNA libraries, containing antennal cDNA from which head cDNAs have been subtracted. Pbprp1 protein has sequences similar to those of Moth Pheromone-binding proteins (PBPs). Members of the PBP-related family are expressed in different subsets of sensilla.

(Pikielny et al., 1994)

Origin and Etymology

Discoverer

Etymology

Identification

External Crossreferences and Linkouts ( 27 )

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.

34031

GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.

U05985

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.

P54195

UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information

P54195

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.

P54195

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0011283

Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones

FBgn0011283

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

34031/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0011283

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

Obp28a_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0011283

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0011283

Flygut - An atlas of the Drosophila adult midgut

FBgn0011283

GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents

34031

InterPro - A database of protein families, domains and functional sites

KEGG Genes - Molecular building blocks of life in the genomic space.

Dmel_CG6641

MARRVEL_MODEL - MARRVEL (model organism gene)

34031

modMine - A data warehouse for the modENCODE project

FBgn0011283

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0011283

DRSC - Results frm RNAi screens

FBgn0011283

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0011283

FlyMine - An integrated database for Drosophila genomics

FBgn0011283

Synonyms and Secondary IDs (15)

Reported As

Symbol Synonym

28a

(Graham and Davies, 2002, Smith, 2002.1.14, Galindo and Smith, 2001)

CG6641

(Palu and Thummel, 2016, Giardina et al., 2011, Keleman et al., 2009.8.5, Pan and Zhang, 2009)

DmelObp28a

(Vieira and Rozas, 2011)

OBP28a

(Rihani et al., 2021, Gonzalez et al., 2020, Rihani et al., 2019)

Obp28a

(Liu et al., 2021, Schmidt and Benton, 2020, He et al., 2019, Maitra et al., 2019, Mohapatra and Menuz, 2019, Williams-Simon et al., 2019, Benoit et al., 2017, Larter et al., 2016, dos Santos, 2014, Menuz et al., 2014, Librado and Rozas, 2013, Martin et al., 2013, Zhou et al., 2009, Vieira et al., 2007, Hekmat-Scafe, 2002.3.5, Hekmat-Scafe et al., 2002, Shanbhag et al., 2001)

PB-PRP5

(Kim et al., 1998)

PBP5

(Galindo and Smith, 2001)

PBPRP-5

(Graham and Davies, 2002)

PBPRP5

(Shanbhag et al., 2001, Shanbhag et al., 2001)

Pbprp5

(Immonen and Ritchie, 2012, Anholt and Williams, 2010, Kong et al., 2010, Zhou et al., 2009, Morozova et al., 2006)

obp28a

(de Bruyne and Warr, 2006)