Brachyury protein - Xenopus laevis (African clawed frog)

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Reviewed, UniProtKB/Swiss-Prot P24781 (BRAC_XENLA)

Last modified June 16, 2009. Version 70. History...

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Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents

Names and origin

Protein names

Recommended name:
    Brachyury protein
      Short name=T protein
      Short name=xBRA

Gene names

Name:	t
Synonyms:	bra

Organism

Xenopus laevis (African clawed frog)

Taxonomic identifier

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Amphibia › Batrachia › Anura › Mesobatrachia › Pipoidea › Pipidae › Xenopodinae › Xenopus › Xenopus

Protein attributes

Sequence length	432 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Involved in the transcriptional regulation of genes required for mesoderm formation and differentiation. Causes dorsal mesodermal differentiation of animal cap ectoderm when co-expressed with wnt8 and noggin. None of these molecules causes dorsal mesoderm formation when expressed alone. Establishes the left/right axis at early gastrula stage by directly up-regulating mesodermal expression of zic3. Ref.3 Ref.6
Subunit structure	Monomer.
Subcellular location	Nucleus.
Tissue specificity	Expressed in presumptive mesodermal cells around the blastopore, and then in the notochord.
Developmental stage	During gastrula and neurula stages in involuting mesoderm and in the notochord.
Induction	By the natural signal and in response to the mesoderm-inducing factors activin A, basic FGF/bFGF, derriere, nodal/nr-1, nodal2/nr-2 and nodal4/nr-4. Ref.4 Ref.5
Sequence similarities	Contains 1 T-box DNA-binding domain.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Nucleus
Ligand	DNA-binding
Molecular function	Activator Developmental protein
Technical term	3D-structure
Gene Ontology (GO)
Biological process	determination of left/right symmetry Ref.6 Inferred from mutant phenotype. Source: UniProtKB embryonic axis specification Ref.6 Inferred from mutant phenotype. Source: UniProtKB positive regulation of transcription from RNA polymerase II promoter Ref.6 Inferred from mutant phenotype. Source: UniProtKB transcription Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	transcription activator activity Ref.6 Inferred from mutant phenotype. Source: UniProtKB transcription factor activity Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

432

Brachyury protein

PRO_0000184417

Regions

DNA binding

169

T-box

Secondary structure

1

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432

Helix Strand Turn

Sequences

Sequence

Length

Mass (Da)

Tools

P24781-1 [UniParc].

Last modified March 1, 1992. Version 1.
Checksum: 2F91D942D86EE60A
Show »

432

47,599

        10         20         30         40         50         60 
MSATESCAKN VQYRVDHLLS AVENELQAGS EKGDPTEKEL KVSLEERDLW TRFKELTNEM 

        70         80         90        100        110        120 
IVTKNGRRMF PVLKVSMSGL DPNAMYTVLL DFVAADNHRW KYVNGEWVPG GKPEPQAPSC 

       130        140        150        160        170        180 
VYIHPDSPNF GAHWMKDPVS FSKVKLTNKM NGGGQIMLNS LHKYEPRIHI VRVGGTQRMI 

       190        200        210        220        230        240 
TSHSFPETQF IAVTAYQNEE ITALKIKHNP FAKAFLDAKE RNDYKDILDE GIDSQHSNFS 

       250        260        270        280        290        300 
QLGTWLIPNG GSLCSPNPHT QFGAPLSLSS PHGCERYSSL RNHRSAPYPS PYTHRNNSPN 

       310        320        330        340        350        360 
NLADNSSACL SMLQSHDNWS TLQMPAHTGM LPMSHSTGTP PPSSQYPSLW SVSNSAITPV 

       370        380        390        400        410        420 
SQSGGITNGI SSQYLLGSTP HYSSLSHAVP SPSTGSPLYE HGAQTEIAEN QYDVTAHSRL 

       430 
SSTWTPVAPP SV

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Expression of a Xenopus homolog of Brachyury (T) is an immediate-early response to mesoderm induction." Smith J.C., Price B.M., Green J.B., Weigel D., Herrmann B.G. Cell 67:79-87(1991) [PubMed: 1717160] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA]. Tissue: Neurula.
[2]	NIH - Xenopus Gene Collection (XGC) project Submitted (JUN-2004) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Gastrula.
[3]	"Specification of mesodermal pattern in Xenopus laevis by interactions between Brachyury, noggin and Xwnt-8." Cunliffe V., Smith J.C. EMBO J. 13:349-359(1994) [PubMed: 7906224] [Abstract] Cited for: FUNCTION.
[4]	"derriere: a TGF-beta family member required for posterior development in Xenopus." Sun B.I., Bush S.M., Collins-Racie L.A., LaVallie E.R., DiBlasio-Smith E.A., Wolfman N.M., McCoy J.M., Sive H.L. Development 126:1467-1482(1999) [PubMed: 10068640] [Abstract] Cited for: INDUCTION.
[5]	"Xenopus nodal-related signaling is essential for mesendodermal patterning during early embryogenesis." Osada S., Wright C.V.E. Development 126:3229-3240(1999) [PubMed: 10375512] [Abstract] Cited for: INDUCTION.
[6]	"Xenopus Brachyury regulates mesodermal expression of Zic3, a gene controlling left-right asymmetry." Kitaguchi T., Mizugishi K., Hatayama M., Aruga J., Mikoshiba K. Dev. Growth Differ. 44:55-61(2002) [PubMed: 11869292] [Abstract] Cited for: FUNCTION.
[7]	"Crystallographic structure of the T domain-DNA complex of the Brachyury transcription factor." Mueller C.W., Herrmann B.G. Nature 389:884-888(1997) [PubMed: 9349824] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.5 ANGSTROMS) OF 39-222.

Cross-references

Sequence databases

M77243 mRNA. Translation: AAA49663.1.
BC072031 mRNA. Translation: AAH72031.1.

PIR

RefSeq

NP_001084047.1.

UniGene

3D structure databases

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1XBR	X-ray	2.50	A/B	39-222	[»]

ModBase

Genome annotation databases

GeneID

KEGG

Organism-specific databases

Xenbase

XB-FEAT-478788. t.

Phylogenomic databases

HOVERGEN

Family and domain databases

InterPro

IPR002070. TF_Brachyury.
IPR001699. TF_T-box.
IPR018186. TF_T-box_CS.
[Graphical view]

Gene3D

G3DSA:2.60.40.820. TF_T-box. 1 hit.

PANTHER

PTHR11267. TF_T-box. 1 hit.

Pfam

PF00907. T-box. 1 hit.
[Graphical view]

PRINTS

PR00938. BRACHYURY.
PR00937. TBOX.

SMART

SM00425. TBOX. 1 hit.
[Graphical view]

PROSITE

PS01283. TBOX_1. 1 hit.
PS01264. TBOX_2. 1 hit.
PS50252. TBOX_3. 1 hit.
[Graphical view]

ProtoNet

Entry information

Entry name

BRAC_XENLA

Accession

Primary (citable) accession number: P24781
Secondary accession number(s): Q6IP86

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 1, 1992
Last sequence update:	March 1, 1992
Last modified:	June 16, 2009
This is version 70 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

Xenopus annotation project

Relevant documents

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents