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Protein

Protein dead ringer

Gene

retn

Organism
Drosophila melanogaster (Fruit fly)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Transcription factor which is a downstream target of gcm and repo. Directly or indirectly activates the transcription of locos and pros, which are essential for the development of some glial cells. Plays an essential role in defining the cell shape and migration characteristics of longitudinal glia that enable them to establish a normal axon scaffold.2 Publications

GO - Molecular functioni

  • DNA binding Source: UniProtKB
  • repressing transcription factor binding Source: FlyBase
  • transcription factor activity, sequence-specific DNA binding Source: FlyBase
  • transcription regulatory region sequence-specific DNA binding Source: FlyBase

GO - Biological processi

  • anterior/posterior pattern specification Source: FlyBase
  • axon guidance Source: FlyBase
  • dendrite morphogenesis Source: FlyBase
  • embryonic pattern specification Source: FlyBase
  • gliogenesis Source: UniProtKB
  • male courtship behavior Source: FlyBase
  • muscle organ development Source: FlyBase
  • negative regulation of transcription from RNA polymerase II promoter Source: FlyBase
  • oogenesis Source: FlyBase
  • positive regulation of transcription, DNA-templated Source: UniProtKB
  • regulation of female receptivity Source: FlyBase
  • regulation of glucose metabolic process Source: FlyBase
  • salivary gland development Source: FlyBase
  • salivary gland morphogenesis Source: FlyBase
  • transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Activator, Developmental protein

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Protein dead ringer
Alternative name(s):
Protein retained
Gene namesi
Name:retn
Synonyms:dri
ORF Names:CG5403
OrganismiDrosophila melanogaster (Fruit fly)Imported
Taxonomic identifieri7227 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaArthropodaHexapodaInsectaPterygotaNeopteraEndopterygotaDipteraBrachyceraMuscomorphaEphydroideaDrosophilidaeDrosophilaSophophora
Proteomesi
  • UP000000803 Componenti: Chromosome 2R

Organism-specific databases

FlyBaseiFBgn0004795. retn.

Subcellular locationi

  • Nucleus PROSITE-ProRule annotation1 Publication

GO - Cellular componenti

  • nucleus Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Disruption phenotypei

Flies show axon guidance abnormalities in mushroom bodies and pathfinding errors by photoreceptor and subesophageal neurons. Female flies with retn defects are strikingly resistant to male courtship and show male-like courtship of females and males, especially as they age.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 911911Protein dead ringerPRO_0000200583Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei30 – 301Phosphoserine1 Publication
Modified residuei35 – 351Phosphothreonine1 Publication
Modified residuei44 – 441Phosphoserine1 Publication
Modified residuei592 – 5921Phosphoserine1 Publication
Modified residuei594 – 5941Phosphoserine1 Publication
Modified residuei720 – 7201Phosphoserine1 Publication

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiQ24573.

PTM databases

iPTMnetiQ24573.

Expressioni

Tissue specificityi

Present in the pharyngeal muscles, hindgut epithelium, amnioserosa, ring gland, midgut-hindgut junction, posterior region of each brain lobe, longitudinal glial cells of the CNS and the salivary gland duct of germ-band retracted embryos.2 Publications

Developmental stagei

Expressed maternally throughout the embryo at the syncytial cleavage divisions and zygotically at the termini and in a broad central band during cellularization. At germ band extension, the protein is found in the mesoderm. Expressed in a subset of neurons from larva and pupa.2 Publications

Gene expression databases

BgeeiQ24573.
GenevisibleiQ24573. DM.

Interactioni

GO - Molecular functioni

  • repressing transcription factor binding Source: FlyBase

Protein-protein interaction databases

BioGridi70031. 3 interactions.
IntActiQ24573. 5 interactions.
STRINGi7227.FBpp0071982.

Structurei

Secondary structure

1
911
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi277 – 28913Combined sources
Helixi294 – 30714Combined sources
Turni308 – 3103Combined sources
Beta strandi319 – 3246Combined sources
Helixi327 – 33610Combined sources
Helixi340 – 3467Combined sources
Helixi349 – 3557Combined sources
Helixi365 – 37612Combined sources
Helixi378 – 3858Combined sources
Helixi390 – 40011Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1C20NMR-A274-401[»]
1KQQNMR-A274-410[»]
ProteinModelPortaliQ24573.
SMRiQ24573. Positions 274-401.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ24573.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini293 – 38593ARIDPROSITE-ProRule annotationAdd
BLAST
Domaini731 – 82595REKLESPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 ARID domain.PROSITE-ProRule annotationCurated
Contains 1 REKLES domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG2744. Eukaryota.
ENOG410Y2AP. LUCA.
GeneTreeiENSGT00550000074575.
InParanoidiQ24573.
OMAiFQVARNG.
OrthoDBiEOG77DJ6W.
PhylomeDBiQ24573.

Family and domain databases

Gene3Di1.10.150.60. 1 hit.
InterProiIPR001606. ARID_dom.
IPR023334. REKLES_domain.
[Graphical view]
PfamiPF01388. ARID. 1 hit.
[Graphical view]
SMARTiSM00501. BRIGHT. 1 hit.
[Graphical view]
SUPFAMiSSF46774. SSF46774. 1 hit.
PROSITEiPS51011. ARID. 1 hit.
PS51486. REKLES. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform B1 Publication (identifier: Q24573-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MQLRVHPTMD CSGRSTSNIE RDSDLGDDLS HGDRTDDEMR DCDSVDGEHH
60 70 80 90 100
QLSAKAAIAA RLSHTVSGGG GSFASPEPQT ELPLSHHHQL PPNHPLNALG
110 120 130 140 150
SFMGIGGLHS IPNLQHSDVL EKLKMQVRDM KVGLMEQDYA AAAHAAAFGA
160 170 180 190 200
NMLPTTISSG FPLPHNSVAF GHVTSSPSGG NGSSYNGGTT PTNSSNSNAT
210 220 230 240 250
TNGGGTAGPG GTGGSGGGGG GGGGGGGGVG GHQFSFASPT AAPSGKEARH
260 270 280 290 300
FAANSASNSS TSSEASNSSQ QNNGWSFEEQ FKQVRQLYEI NDDPKRKEFL
310 320 330 340 350
DDLFSFMQKR GTPINRLPIM AKSVLDLYEL YNLVIARGGL VDVINKKLWQ
360 370 380 390 400
EIIKGLHLPS SITSAAFTLR TQYMKYLYPY ECEKKNLSTP AELQAAIDGN
410 420 430 440 450
RREGRRSSYG QYEAMHNQMP MTPISRPSLP GGMQQMSPLA LVTHAAVANN
460 470 480 490 500
QQAQAAAAAA AAHHRLMGAP AFGQMPNLVK QEIESRMMEY LQLIQAKKEQ
510 520 530 540 550
GMPPVLGGNH PHQQQHSQQQ QQQQHHHQQQ QQQQSQQQHH LQQQRQRSQS
560 570 580 590 600
PDLSKHEALS AQVALWHMYH NNNSPPGSAH TSPQQREALN LSDSPPNLTN
610 620 630 640 650
IKREREREPT PEPVDQDDKF VDQPPPAKRV GSGLLPPGFP ANFYLNPHNM
660 670 680 690 700
AAVAAAAGFH HPSMGHQQDA ASEGEPEDDY AHGEHNTTGN SSSMHDDSEP
710 720 730 740 750
QQMNGHHHHQ THHLDKSDDS AIENSPTTST TTGGSVGHRH SSPVSTKKKG
760 770 780 790 800
GAKPQSGGKD VPTEDKDASS SGKLNPLETL SLLSGMQFQV ARNGTGDNGE
810 820 830 840 850
PQLIVNLELN GVKYSGVLVA NVPLSQSETR TSSPCHAEAP TVEEEKDEEE
860 870 880 890 900
EEEPKAAEEE SHRSPVKQEN EDVDQDMEGS EVLLNGGASA VGGAGAGVGV
910
GVPLLKDAVV S
Length:911
Mass (Da):97,365
Last modified:March 15, 2004 - v2
Checksum:i4A2F0BFAB468906A
GO
Isoform A1 Publication (identifier: Q24573-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     248-252: Missing.

Note: No experimental confirmation available.Curated
Show »
Length:906
Mass (Da):96,782
Checksum:iAE4B440BA927CC0E
GO

Sequence cautioni

The sequence AAB05771.1 differs from that shown. Reason: Erroneous initiation. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti176 – 1761S → A in AAB05771 (PubMed:8622680).Curated
Sequence conflicti219 – 2191G → GA in AAB05771 (PubMed:8622680).Curated
Sequence conflicti524 – 5241Missing in AAB05771 (PubMed:8622680).Curated
Sequence conflicti528 – 5281Missing in AAB05771 (PubMed:8622680).Curated
Sequence conflicti761 – 7611V → L in AAB05771 (PubMed:8622680).Curated
Sequence conflicti853 – 8531E → EEE in AAB05771 (PubMed:8622680).Curated
Sequence conflicti873 – 8731V → A in AAB05771 (PubMed:8622680).Curated
Sequence conflicti902 – 9021V → VGV in AAB05771 (PubMed:8622680).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei248 – 2525Missing in isoform A. 2 PublicationsVSP_050694

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U62542 mRNA. Translation: AAB05771.1. Different initiation.
AE013599 Genomic DNA. Translation: AAO41347.1.
AE013599 Genomic DNA. Translation: AAF47037.3.
AY118955 mRNA. Translation: AAM50815.1.
PIRiJC6093.
RefSeqiNP_476864.2. NM_057516.4. [Q24573-2]
NP_788434.1. NM_176254.2. [Q24573-1]
UniGeneiDm.20640.

Genome annotation databases

EnsemblMetazoaiFBtr0072073; FBpp0071982; FBgn0004795. [Q24573-1]
GeneIDi45976.
KEGGidme:Dmel_CG5403.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U62542 mRNA. Translation: AAB05771.1. Different initiation.
AE013599 Genomic DNA. Translation: AAO41347.1.
AE013599 Genomic DNA. Translation: AAF47037.3.
AY118955 mRNA. Translation: AAM50815.1.
PIRiJC6093.
RefSeqiNP_476864.2. NM_057516.4. [Q24573-2]
NP_788434.1. NM_176254.2. [Q24573-1]
UniGeneiDm.20640.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1C20NMR-A274-401[»]
1KQQNMR-A274-410[»]
ProteinModelPortaliQ24573.
SMRiQ24573. Positions 274-401.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi70031. 3 interactions.
IntActiQ24573. 5 interactions.
STRINGi7227.FBpp0071982.

PTM databases

iPTMnetiQ24573.

Proteomic databases

PaxDbiQ24573.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaiFBtr0072073; FBpp0071982; FBgn0004795. [Q24573-1]
GeneIDi45976.
KEGGidme:Dmel_CG5403.

Organism-specific databases

CTDi56729.
FlyBaseiFBgn0004795. retn.

Phylogenomic databases

eggNOGiKOG2744. Eukaryota.
ENOG410Y2AP. LUCA.
GeneTreeiENSGT00550000074575.
InParanoidiQ24573.
OMAiFQVARNG.
OrthoDBiEOG77DJ6W.
PhylomeDBiQ24573.

Miscellaneous databases

EvolutionaryTraceiQ24573.
GenomeRNAii45976.
PROiQ24573.

Gene expression databases

BgeeiQ24573.
GenevisibleiQ24573. DM.

Family and domain databases

Gene3Di1.10.150.60. 1 hit.
InterProiIPR001606. ARID_dom.
IPR023334. REKLES_domain.
[Graphical view]
PfamiPF01388. ARID. 1 hit.
[Graphical view]
SMARTiSM00501. BRIGHT. 1 hit.
[Graphical view]
SUPFAMiSSF46774. SSF46774. 1 hit.
PROSITEiPS51011. ARID. 1 hit.
PS51486. REKLES. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Characterization of the dead ringer gene identifies a novel, highly conserved family of sequence-specific DNA-binding proteins."
    Gregory S.L., Kortschak R.D., Kalionis B., Saint R.
    Mol. Cell. Biol. 16:792-799(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM A), SUBCELLULAR LOCATION, DEVELOPMENTAL STAGE, TISSUE SPECIFICITY.
    Tissue: Embryo1 Publication.
  2. "The genome sequence of Drosophila melanogaster."
    Adams M.D., Celniker S.E., Holt R.A., Evans C.A., Gocayne J.D., Amanatides P.G., Scherer S.E., Li P.W., Hoskins R.A., Galle R.F., George R.A., Lewis S.E., Richards S., Ashburner M., Henderson S.N., Sutton G.G., Wortman J.R., Yandell M.D.
    , Zhang Q., Chen L.X., Brandon R.C., Rogers Y.-H.C., Blazej R.G., Champe M., Pfeiffer B.D., Wan K.H., Doyle C., Baxter E.G., Helt G., Nelson C.R., Miklos G.L.G., Abril J.F., Agbayani A., An H.-J., Andrews-Pfannkoch C., Baldwin D., Ballew R.M., Basu A., Baxendale J., Bayraktaroglu L., Beasley E.M., Beeson K.Y., Benos P.V., Berman B.P., Bhandari D., Bolshakov S., Borkova D., Botchan M.R., Bouck J., Brokstein P., Brottier P., Burtis K.C., Busam D.A., Butler H., Cadieu E., Center A., Chandra I., Cherry J.M., Cawley S., Dahlke C., Davenport L.B., Davies P., de Pablos B., Delcher A., Deng Z., Mays A.D., Dew I., Dietz S.M., Dodson K., Doup L.E., Downes M., Dugan-Rocha S., Dunkov B.C., Dunn P., Durbin K.J., Evangelista C.C., Ferraz C., Ferriera S., Fleischmann W., Fosler C., Gabrielian A.E., Garg N.S., Gelbart W.M., Glasser K., Glodek A., Gong F., Gorrell J.H., Gu Z., Guan P., Harris M., Harris N.L., Harvey D.A., Heiman T.J., Hernandez J.R., Houck J., Hostin D., Houston K.A., Howland T.J., Wei M.-H., Ibegwam C., Jalali M., Kalush F., Karpen G.H., Ke Z., Kennison J.A., Ketchum K.A., Kimmel B.E., Kodira C.D., Kraft C.L., Kravitz S., Kulp D., Lai Z., Lasko P., Lei Y., Levitsky A.A., Li J.H., Li Z., Liang Y., Lin X., Liu X., Mattei B., McIntosh T.C., McLeod M.P., McPherson D., Merkulov G., Milshina N.V., Mobarry C., Morris J., Moshrefi A., Mount S.M., Moy M., Murphy B., Murphy L., Muzny D.M., Nelson D.L., Nelson D.R., Nelson K.A., Nixon K., Nusskern D.R., Pacleb J.M., Palazzolo M., Pittman G.S., Pan S., Pollard J., Puri V., Reese M.G., Reinert K., Remington K., Saunders R.D.C., Scheeler F., Shen H., Shue B.C., Siden-Kiamos I., Simpson M., Skupski M.P., Smith T.J., Spier E., Spradling A.C., Stapleton M., Strong R., Sun E., Svirskas R., Tector C., Turner R., Venter E., Wang A.H., Wang X., Wang Z.-Y., Wassarman D.A., Weinstock G.M., Weissenbach J., Williams S.M., Woodage T., Worley K.C., Wu D., Yang S., Yao Q.A., Ye J., Yeh R.-F., Zaveri J.S., Zhan M., Zhang G., Zhao Q., Zheng L., Zheng X.H., Zhong F.N., Zhong W., Zhou X., Zhu S.C., Zhu X., Smith H.O., Gibbs R.A., Myers E.W., Rubin G.M., Venter J.C.
    Science 287:2185-2195(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Berkeley1 Publication.
  3. Cited for: GENOME REANNOTATION, ALTERNATIVE SPLICING.
    Strain: Berkeley.
  4. "A Drosophila full-length cDNA resource."
    Stapleton M., Carlson J.W., Brokstein P., Yu C., Champe M., George R.A., Guarin H., Kronmiller B., Pacleb J.M., Park S., Wan K.H., Rubin G.M., Celniker S.E.
    Genome Biol. 3:RESEARCH0080.1-RESEARCH0080.8(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM B).
    Strain: Berkeley1 Publication.
    Tissue: Embryo1 Publication.
  5. "The dead ringer/retained transcriptional regulatory gene is required for positioning of the longitudinal glia in the Drosophila embryonic CNS."
    Shandala T., Takizawa K., Saint R.
    Development 130:1505-1513(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, TISSUE SPECIFICITY.
  6. "Drosophila retained/dead ringer is necessary for neuronal pathfinding, female receptivity and repression of fruitless independent male courtship behaviors."
    Ditch L.M., Shirangi T., Pitman J.L., Latham K.L., Finley K.D., Edeen P.T., Taylor B.J., McKeown M.
    Development 132:155-164(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, DEVELOPMENTAL STAGE, DISRUPTION PHENOTYPE.
  7. "Phosphoproteome analysis of Drosophila melanogaster embryos."
    Zhai B., Villen J., Beausoleil S.A., Mintseris J., Gygi S.P.
    J. Proteome Res. 7:1675-1682(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-30; THR-35; SER-44; SER-592; SER-594 AND SER-720, IDENTIFICATION BY MASS SPECTROMETRY.
    Tissue: Embryo.
  8. "The structure of the Dead ringer-DNA complex reveals how AT-rich interaction domains (ARIDs) recognize DNA."
    Iwahara J., Iwahara M., Daughdrill G.W., Ford J., Clubb R.T.
    EMBO J. 21:1197-1209(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: STRUCTURE BY NMR OF 274-410, DNA-BINDING.

Entry informationi

Entry nameiDRI_DROME
AccessioniPrimary (citable) accession number: Q24573
Secondary accession number(s): Q8MSB0, Q9W1M0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 29, 2004
Last sequence update: March 15, 2004
Last modified: June 8, 2016
This is version 131 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programDrosophila annotation project

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Drosophila
    Drosophila: entries, gene names and cross-references to FlyBase
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.