P40427 (EXD_DROME) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Homeobox protein extradenticle
Short name=Dpbx

Gene names

Name:	exd
ORF Names:	CG8933

Organism

Drosophila melanogaster (Fruit fly)

Taxonomic identifier

7227 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Arthropoda › Hexapoda › Insecta › Pterygota › Neoptera › Endopterygota › Diptera › Brachycera › Muscomorpha › Ephydroidea › Drosophilidae › Drosophila › Sophophora

Protein attributes

Sequence length	376 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Transcription factor which acts with the selector homeodomain proteins altering the regulation of downstream target genes such as wingless (wg), teashirt (tsh) and decapentaplegic (dpp), thus affecting segmental identity. Delimits the eye field and prevent inappropriate eye development. Required for proper localization of chordotonal organs within the peripheral nervous system. Ref.1 Ref.5 Ref.6 Ref.7 Ref.8 Ref.9
Subunit structure	Interacts with Ubx and hth. Ref.7 Ref.8 Ref.9
Subcellular location	Nucleus. Note: Nuclear translocation requires interaction with hth. Ref.7 Ref.8 Ref.9
Tissue specificity	Prior to full germband retraction it is ubiquitously present, after germband retraction, mostly present in the anterior portion of the ventral nerve cord. Ref.5 Ref.6
Developmental stage	Expressed both maternally and zygotically at all stages of development. Ref.1 Ref.5 Ref.6 Ref.7
Disruption phenotype	Weak posterior-directed transformations in all 3 thoracic segments and in the anterior segments of the abdomen. Ref.1
Sequence similarities	Belongs to the TALE/PBX homeobox family. Contains 1 homeobox DNA-binding domain.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Nucleus
Domain	Homeobox
Ligand	DNA-binding
Molecular function	Developmental protein
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	brain development Inferred from mutant phenotype. Source: FlyBase eye development Inferred from mutant phenotype Ref.9. Source: UniProtKB leg disc proximal/distal pattern formation Traceable author statement. Source: FlyBase oenocyte development Inferred from mutant phenotype. Source: FlyBase peripheral nervous system development Inferred from mutant phenotype Ref.8. Source: UniProtKB protein import into nucleus, translocation Inferred from mutant phenotype Ref.9. Source: UniProtKB salivary gland boundary specification Non-traceable author statement. Source: FlyBase
Cellular component	cytoplasm Traceable author statement. Source: FlyBase transcription factor complex Inferred from direct assay Ref.1. Source: UniProtKB
Molecular function	protein binding Inferred from physical interaction Ref.10Ref.7Ref.9Ref.8. Source: UniProtKB sequence-specific DNA binding Inferred from direct assay. Source: FlyBase sequence-specific distal enhancer binding RNA polymerase II transcription factor activity Inferred from direct assay. Source: FlyBase
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
Dfd	P07548	2	EBI-101537,EBI-458925
hth	O46339	8	EBI-101537,EBI-137488

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 376

376

Homeobox protein extradenticle

PRO_0000048875

Regions

DNA binding

238 – 300

63

Homeobox; TALE-type

Compositional bias

127 – 135

9

Poly-Ala

Experimental info

Sequence conflict

98

1

E → G in CAA79313. Ref.5

Sequence conflict

344

1

M → K in CAA79313. Ref.5

Sequence conflict

363

1

M → T in CAA79313. Ref.5

Secondary structure

1

.

.

.

.

.

.

.

376

Helix Strand Turn

Details...

Helix

247 – 259

13

Helix

270 – 278

9

Helix

282 – 297

16

Sequences

	Sequence		Length	Mass (Da)
	P40427 [UniParc]. Last modified February 1, 1995. Version 1. Checksum: 79E3DC8F1F6B711F	FASTA	376	41,692
	10 20 30 40 50 60 MEDPNRMLAH TGGMMAPQGY GLSGQDDGQN AGSENEVRKQ KDIGEILQQI MSISEQSLDE 70 80 90 100 110 120 AQARKHTLNC HRMKPALFSV LCEIKEKTVL SIRNTQEEEP PDPQLMRLDN MLIAEGVAGP 130 140 150 160 170 180 EKGGGGAAAA SAAAASQGGS LSIDGADNAI EHSDYRAKLA QIRQIYHQEL EKYEQACNEF 190 200 210 220 230 240 TTHVMNLLRE QSRTRPITPK EIERMVQIIH KKFSSIQMQL KQSTCEAVMI LRSRFLDARR 250 260 270 280 290 300 KRRNFSKQAS EILNEYFYSH LSNPYPSEEA KEELARKCGI TVSQVSNWFG NKRIRYKKNI 310 320 330 340 350 360 GKAQEEANLY AAKKAAGASP YSMAGPPSGT TTPMMSPAPP QDSMGYPMGS GGYDQQQPYD 370 NSMGGYDPNL HQDLSP

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Extradenticle, a regulator of homeotic gene activity, is a homolog of the homeobox-containing human proto-oncogene pbx1." Rauskolb C., Peifer M., Wieschaus E. Cell 74:1101-1112(1993) [PubMed: 8104703] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA], FUNCTION, DEVELOPMENTAL STAGE, DISRUPTION PHENOTYPE.
[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: 10731132] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: Berkeley.
[3]	"Annotation of the Drosophila melanogaster euchromatic genome: a systematic review." Misra S., Crosby M.A., Mungall C.J., Matthews B.B., Campbell K.S., Hradecky P., Huang Y., Kaminker J.S., Millburn G.H., Prochnik S.E., Smith C.D., Tupy J.L., Whitfield E.J., Bayraktaroglu L., Berman B.P., Bettencourt B.R., Celniker S.E., de Grey A.D.N.J. , Drysdale R.A., Harris N.L., Richter J., Russo S., Schroeder A.J., Shu S.Q., Stapleton M., Yamada C., Ashburner M., Gelbart W.M., Rubin G.M., Lewis S.E. Genome Biol. 3:RESEARCH0083.1-RESEARCH0083.22(2002) [PubMed: 12537572] [Abstract] Cited for: GENOME REANNOTATION. 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: 12537569] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Strain: Berkeley. Tissue: Embryo.
[5]	"Dpbx, a new homeobox gene closely related to the human proto-oncogene pbx1 molecular structure and developmental expression." Flegel W.A., Singson A.W., Margolis J.S., Bang A.G., Posakony J.W., Murre C. Mech. Dev. 41:155-161(1993) [PubMed: 8100142] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 1-365, FUNCTION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE. Strain: y(2)w(bf).
[6]	"Coordinate regulation of downstream genes by extradenticle and the homeotic selector proteins." Rauskolb C., Wieschaus E. EMBO J. 13:3561-3569(1994) [PubMed: 7914871] [Abstract] Cited for: FUNCTION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE.
[7]	"Nuclear translocation of extradenticle requires homothorax, which encodes an extradenticle-related homeodomain protein." Rieckhof G.E., Casares F., Ryoo H.D., Abu-Shaar M., Mann R.S. Cell 91:171-183(1997) [PubMed: 9346235] [Abstract] Cited for: FUNCTION, INTERACTION WITH HTH, SUBCELLULAR LOCATION, DEVELOPMENTAL STAGE. Tissue: Antenna.
[8]	"Dorsotonals/homothorax, the Drosophila homologue of meis1, interacts with extradenticle in patterning of the embryonic PNS." Kurant E., Pai C.-Y., Sharf R., Halachmi N., Sun Y.H., Salzberg A. Development 125:1037-1048(1998) [PubMed: 9463350] [Abstract] Cited for: FUNCTION, INTERACTION WITH HTH, SUBCELLULAR LOCATION.
[9]	"The Homothorax homeoprotein activates the nuclear localization of another homeoprotein, extradenticle, and suppresses eye development in Drosophila." Pai C.-Y., Kuo T.-S., Jaw T.J., Kurant E., Chen C.-T., Bessarab D.A., Salzberg A., Sun Y.H. Genes Dev. 12:435-446(1998) [PubMed: 9450936] [Abstract] Cited for: FUNCTION, INTERACTION WITH HTH, SUBCELLULAR LOCATION.
[10]	"Structure of a DNA-bound Ultrabithorax-Extradenticle homeodomain complex." Passner J.M., Ryoo H.-D., Shen L., Mann R.S., Aggarwal A.K. Nature 397:714-719(1999) [PubMed: 10067897] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.4 ANGSTROMS) OF 238-300 IN COMPLEX WITH UBX.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

U33747 Genomic DNA. Translation: AAC46903.1.
L19295 mRNA. Translation: AAC37182.1.
AE014298 Genomic DNA. Translation: AAF48555.1.
AE014298 Genomic DNA. Translation: AAN09379.1.
AY061065 mRNA. Translation: AAL28613.1.
Z18864 mRNA. Translation: CAA79313.1.

PIR

A48840.

RefSeq

NP_523360.1. NM_078636.4.
NP_727923.1. NM_167478.1.
NP_727924.1. NM_167479.1.

UniGene

Dm.174.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1B8I	X-ray	2.40	B	238-300	[»]
2R5Y	X-ray	2.60	B	238-300	[»]
2R5Z	X-ray	2.60	B	238-300	[»]

ProteinModelPortal

P40427.

SMR

P40427. Positions 170-299.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-18773N.

IntAct

P40427. 7 interactions.

MINT

MINT-86818.

STRING

P40427.

Proteomic databases

PRIDE

P40427.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblMetazoa

FBtr0074135; FBpp0073940; FBgn0000611.
FBtr0074136; FBpp0073941; FBgn0000611.
FBtr0074137; FBpp0073942; FBgn0000611.

GeneID

32567.

KEGG

dme:Dmel_CG8933.

UCSC

CG8933-RA. d. melanogaster.

Organism-specific databases

CTD

32567.

FlyBase

FBgn0000611. exd.

Phylogenomic databases

eggNOG

inNOG05725.

GeneTree

EMGT00050000005917.

InParanoid

P40427.

OMA

HQIRVVY.

OrthoDB

EOG4RV16Z.

PhylomeDB

P40427.

Gene expression databases

ArrayExpress

P40427.

Bgee

P40427.

GermOnline

CG8933. Drosophila melanogaster.

Family and domain databases

InterPro

IPR001356. Homeobox.
IPR017970. Homeobox_CS.
IPR009057. Homeodomain-like.
IPR012287. Homeodomain-rel.
IPR005542. PBX.
[Graphical view]

Gene3D

G3DSA:1.10.10.60. Homeodomain-rel. 1 hit.

KO

K09355.

Pfam

PF00046. Homeobox. 1 hit.
PF03792. PBC. 1 hit.
[Graphical view]

SMART

SM00389. HOX. 1 hit.
[Graphical view]

SUPFAM

SSF46689. Homeodomain_like. 1 hit.

PROSITE

PS00027. HOMEOBOX_1. 1 hit.
PS50071. HOMEOBOX_2. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

NextBio

779186.

Entry information

Entry name

EXD_DROME

Accession

Primary (citable) accession number: P40427
Secondary accession number(s): A4V4K5, Q0KHS1, Q9V3S2

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1995
Last sequence update:	February 1, 1995
Last modified:	January 25, 2012
This is version 116 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Drosophila annotation project