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Q8RYD9 (TT16_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified June 11, 2014. Version 96. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Protein TRANSPARENT TESTA 16
Alternative name(s):
Arabidopsis BSISTER MADS-box protein
Gene names
Name:TT16
Synonyms:ABS, AGL32
Ordered Locus Names:At5g23260
ORF Names:MKD15.12
OrganismArabidopsis thaliana (Mouse-ear cress) [Reference proteome]
Taxonomic identifier3702 [NCBI]
Taxonomic lineageEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis

Protein attributes

Sequence length252 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Transcription factor involved in the developmental regulation of the endothelium and in the accumulation of proanthocyanidins (PAs) or condensed tannins which give the seed its brown pigmentation after oxidation. Necessary for the normal activation of the BANYULS promoter in the endothelium body.

Pathway

Secondary metabolite biosynthesis; flavonoid biosynthesis.

Subcellular location

Nucleus By similarity.

Tissue specificity

Expressed in buds, flowers and immature seeds, but not in roots, stems, leaves, seedlings or siliques valves. Expression in seed coat is confined to the endothelium layer.

Developmental stage

Expressed during seed development.

Miscellaneous

The two isoforms were always coexpressed in the tissues investigated. The pigmentation of the chalaza-micropyle region is not under the control of ABS, as opposed to the pigmentation of the seed body.

Sequence similarities

Contains 1 K-box domain.

Contains 1 MADS-box domain.

Sequence caution

The sequence BAB11181.1 differs from that shown. Reason: Erroneous gene model prediction.

Binary interactions

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q8RYD9-1)

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.
Isoform 2 (identifier: Q8RYD9-2)

The sequence of this isoform differs from the canonical sequence as follows:
     142-146: Missing.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 252252Protein TRANSPARENT TESTA 16
PRO_0000199495

Regions

Domain1 – 6161MADS-box
Domain86 – 17691K-box
Coiled coil121 – 17454 Potential
Compositional bias180 – 22243Gln-rich

Natural variations

Alternative sequence142 – 1465Missing in isoform 2.
VSP_006257

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified June 1, 2002. Version 1.
Checksum: 2C4ECB9D9C1DEEA8

FASTA25229,698
        10         20         30         40         50         60 
MGRGKIEIKK IENQTARQVT FSKRRTGLIK KTRELSILCD AHIGLIVFSA TGKLSEFCSE 

        70         80         90        100        110        120 
QNRMPQLIDR YLHTNGLRLP DHHDDQEQLH HEMELLRRET CNLELRLRPF HGHDLASIPP 

       130        140        150        160        170        180 
NELDGLERQL EHSVLKVRER KNELMQQQLE NLSRKRRMLE EDNNNMYRWL HEHRAAMEFQ 

       190        200        210        220        230        240 
QAGIDTKPGE YQQFIEQLQC YKPGEYQQFL EQQQQQPNSV LQLATLPSEI DPTYNLQLAQ 

       250 
PNLQNDPTAQ ND 

« Hide

Isoform 2 [UniParc].

Checksum: 165474BA5A60B555
Show »

FASTA24729,082

References

« Hide 'large scale' references
[1]"A novel MADS-box gene subfamily with sistergroup relationship to class B floral homeotic genes."
Becker A., Kaufmann K., Freialdenhoven A., Vincent C., Li M.-A., Saedler H., Theissen G.
Mol. Genet. Genomics 266:942-950(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
Strain: cv. Columbia.
Tissue: Green siliques.
[2]"Molecular and phylogenetic analyses of the complete MADS-box transcription factor family in Arabidopsis: new openings to the MADS world."
Parenicova L., de Folter S., Kieffer M., Horner D.S., Favalli C., Busscher J., Cook H.E., Ingram R.M., Kater M.M., Davies B., Angenent G.C., Colombo L.
Plant Cell 15:1538-1551(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), GENE FAMILY ORGANIZATION.
Strain: cv. Columbia.
Tissue: Silique.
[3]"Structural analysis of Arabidopsis thaliana chromosome 5. III. Sequence features of the regions of 1,191,918 bp covered by seventeen physically assigned P1 clones."
Nakamura Y., Sato S., Kaneko T., Kotani H., Asamizu E., Miyajima N., Tabata S.
DNA Res. 4:401-414(1997) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: cv. Columbia.
[4]The Arabidopsis Information Resource (TAIR)
Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
Cited for: GENOME REANNOTATION.
Strain: cv. Columbia.
[5]"Arabidopsis ORF clones."
Bautista V.R., Kim C.J., Chen H., Wu S.Y., De Los Reyes C., Ecker J.R.
Submitted (JAN-2007) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
Strain: cv. Columbia.
[6]"The TRANSPARENT TESTA16 locus encodes the ARABIDOPSIS BSISTER MADS domain protein and is required for proper development and pigmentation of the seed coat."
Nesi N., Debeaujon I., Jond C., Stewart A.J., Jenkins G.I., Caboche M., Lepiniec L.
Plant Cell 14:2463-2479(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: CHARACTERIZATION, ALTERNATIVE SPLICING.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AJ318098 mRNA. Translation: CAC85664.1.
AY141212 mRNA. Translation: AAN52776.1.
AB007648 Genomic DNA. Translation: BAB11181.1. Sequence problems.
CP002688 Genomic DNA. Translation: AED93143.1.
CP002688 Genomic DNA. Translation: AED93144.1.
BT030048 mRNA. Translation: ABN04786.1.
RefSeqNP_001119264.1. NM_001125792.1.
NP_197717.3. NM_122232.3. [Q8RYD9-2]
NP_974823.1. NM_203094.1. [Q8RYD9-1]
UniGeneAt.31019.

3D structure databases

ProteinModelPortalQ8RYD9.
SMRQ8RYD9. Positions 2-59.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid17665. 9 interactions.
IntActQ8RYD9. 20 interactions.
STRING3702.AT5G23260.2-P.

Proteomic databases

PRIDEQ8RYD9.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsAT5G23260.2; AT5G23260.2; AT5G23260. [Q8RYD9-1]
GeneID832390.
KEGGath:AT5G23260.

Organism-specific databases

GeneFarm3507. 354.
TAIRAT5G23260.

Phylogenomic databases

eggNOGCOG5068.
HOGENOMHOG000155301.
InParanoidQ8RYD9.
OMAIENQTAR.
PhylomeDBQ8RYD9.

Enzyme and pathway databases

UniPathwayUPA00154.

Gene expression databases

GenevestigatorQ8RYD9.

Family and domain databases

InterProIPR002487. TF_Kbox.
IPR002100. TF_MADSbox.
[Graphical view]
PfamPF01486. K-box. 1 hit.
PF00319. SRF-TF. 1 hit.
[Graphical view]
PRINTSPR00404. MADSDOMAIN.
SMARTSM00432. MADS. 1 hit.
[Graphical view]
SUPFAMSSF55455. SSF55455. 1 hit.
PROSITEPS51297. K_BOX. 1 hit.
PS00350. MADS_BOX_1. 1 hit.
PS50066. MADS_BOX_2. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameTT16_ARATH
AccessionPrimary (citable) accession number: Q8RYD9
Secondary accession number(s): Q540P5, Q9FMX4
Entry history
Integrated into UniProtKB/Swiss-Prot: December 13, 2002
Last sequence update: June 1, 2002
Last modified: June 11, 2014
This is version 96 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PATHWAY comments

Index of metabolic and biosynthesis pathways

Arabidopsis thaliana

Arabidopsis thaliana: entries and gene names