PlantTFDB
Plant Transcription Factor Database
v4.0
Previous version: v3.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID AT5G23260.1
Common NameABS, AGL32, TT16
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family MIKC_MADS
Protein Properties Length: 247aa    MW: 29081.8 Da    PI: 6.7408
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AT5G23260.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF77.59.9e-25959151
                 S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
       SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                 k+ien++ rqvtfskRr+g++KK  ELS+LCda + +i+fs tgkl e++s
  AT5G23260.1  9 KKIENQTARQVTFSKRRTGLIKKTRELSILCDAHIGLIVFSATGKLSEFCS 59
                 68***********************************************96 PP

2K-box42.62.7e-15831631196
        K-box  11 eakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrk 96 
                  + ++e+l++e++ L++e+ nL+  +R + G dL s+  +eL  Le+qLe+s+ k+R++K++     +e+l +k ++l+e+n+++ +
  AT5G23260.1  83 HDDQEQLHHEMELLRRETCNLELRLRPFHGHDLASIPPNELDGLERQLEHSVLKVRERKQQ-----LENLSRKRRMLEEDNNNMYR 163
                  566899*****************************************************75.....69999999999999998765 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006629.955161IPR002100Transcription factor, MADS-box
SMARTSM004329.8E-38160IPR002100Transcription factor, MADS-box
CDDcd002651.91E-42279No hitNo description
SuperFamilySSF554553.66E-31292IPR002100Transcription factor, MADS-box
PRINTSPR004042.6E-26323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003192.5E-231057IPR002100Transcription factor, MADS-box
PRINTSPR004042.6E-262338IPR002100Transcription factor, MADS-box
PRINTSPR004042.6E-263859IPR002100Transcription factor, MADS-box
PfamPF014868.8E-1582165IPR002487Transcription factor, K-box
PROSITE profilePS5129712.38886171IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0008360Biological Processregulation of cell shape
GO:0009813Biological Processflavonoid biosynthetic process
GO:0019252Biological Processstarch biosynthetic process
GO:0043068Biological Processpositive regulation of programmed cell death
GO:0048316Biological Processseed development
GO:0048481Biological Processplant ovule development
GO:0080155Biological Processregulation of double fertilization forming a zygote and endosperm
GO:2000029Biological Processregulation of proanthocyanidin biosynthetic process
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0005515Molecular Functionprotein binding
GO:0046983Molecular Functionprotein dimerization activity
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000013anatomycauline leaf
PO:0000037anatomyshoot apex
PO:0009001anatomyfruit
PO:0009009anatomyplant embryo
PO:0009010anatomyseed
PO:0009031anatomysepal
PO:0009032anatomypetal
PO:0009046anatomyflower
PO:0009052anatomyflower pedicel
PO:0020024anatomyendothelium
PO:0025022anatomycollective leaf structure
PO:0001078developmental stageplant embryo cotyledonary stage
PO:0001185developmental stageplant embryo globular stage
PO:0004507developmental stageplant embryo bilateral stage
PO:0007611developmental stagepetal differentiation and expansion stage
PO:0007616developmental stageflowering stage
Sequence ? help Back to Top
Protein Sequence    Length: 247 aa     Download sequence    Send to blast
MGRGKIEIKK IENQTARQVT FSKRRTGLIK KTRELSILCD AHIGLIVFSA TGKLSEFCSE  60
QNRMPQLIDR YLHTNGLRLP DHHDDQEQLH HEMELLRRET CNLELRLRPF HGHDLASIPP  120
NELDGLERQL EHSVLKVRER KQQLENLSRK RRMLEEDNNN MYRWLHEHRA AMEFQQAGID  180
TKPGEYQQFI EQLQCYKPGE YQQFLEQQQQ QPNSVLQLAT LPSEIDPTYN LQLAQPNLQN  240
DPTAQND
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P2e-14159159Myocyte-specific enhancer factor 2B
1tqe_Q2e-14159159Myocyte-specific enhancer factor 2B
1tqe_R2e-14159159Myocyte-specific enhancer factor 2B
1tqe_S2e-14159159Myocyte-specific enhancer factor 2B
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1147152SRKRRM
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
At.310190.0flower| silique
Expression -- Microarray ? help Back to Top
Source ID E-value
Genevisible249851_at1e-166
Expression AtlasAT5G23260-
AtGenExpressAT5G23260-
ATTED-IIAT5G23260-
Functional Description ? help Back to Top
Source Description
TAIREncodes a MADS box protein. Regulates proanthocyanidin biosynthesis in the inner-most cell layer of the seed coat. Also controls cell shape of the inner-most cell layer of the seed coat. Also shown to be necessary for determining the identity of the endothelial layer within the ovule. Paralogous to GOA.
Function -- GeneRIF ? help Back to Top
  1. No shared protein interaction partners for ABS and GOA could be identified.
    [PMID: 20598091]
  2. STK and ABS played a role in the maternal control of endothelium formation, as the abs stk double mutant completely lacks endothelium.
    [PMID: 22176531]
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT5G23260.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Regulation -- ATRM (Manually Curated Target Genes) ? help Back to Top
Source Target Gene (A: Activate/R: Repress)
ATRM AT1G61720(A)
Interaction ? help Back to Top
Source Intact With
BioGRIDAT5G23260, AT1G24260, AT1G31640, AT1G46408, AT1G48150, AT1G69120
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT5G23260
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY1412120.0AY141212.1 Arabidopsis thaliana MADS-box protein AGL32 mRNA, complete cds.
GenBankBT0300480.0BT030048.1 Arabidopsis thaliana At5g23260 mRNA, complete cds.
GenBankBT0313600.0BT031360.1 Arabidopsis thaliana unknown protein (At5g23260) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_197717.30.0protein TRANSPARENT TESTA 16
SwissprotQ8RYD91e-175TT16_ARATH; Protein TRANSPARENT TESTA 16
TrEMBLB2GVM90.0B2GVM9_ARATH; At5g23260
STRINGAT5G23260.21e-173(Arabidopsis thaliana)
Publications ? help Back to Top
  1. Riechmann JL, et al.
    Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.
    Science, 2000. 290(5499): p. 2105-10
    [PMID:11118137]
  2. Nesi N, et al.
    The TRANSPARENT TESTA16 locus encodes the ARABIDOPSIS BSISTER MADS domain protein and is required for proper development and pigmentation of the seed coat.
    Plant Cell, 2002. 14(10): p. 2463-79
    [PMID:12368498]
  3. R
    Rapid identification of Arabidopsis insertion mutants by non-radioactive detection of T-DNA tagged genes.
    Plant J., 2002. 32(2): p. 243-53
    [PMID:12383089]
  4. Parenicov√° L, et al.
    Molecular and phylogenetic analyses of the complete MADS-box transcription factor family in Arabidopsis: new openings to the MADS world.
    Plant Cell, 2003. 15(7): p. 1538-51
    [PMID:12837945]
  5. de Folter S, et al.
    Comprehensive interaction map of the Arabidopsis MADS Box transcription factors.
    Plant Cell, 2005. 17(5): p. 1424-33
    [PMID:15805477]
  6. Kaufmann K,Anfang N,Saedler H,Theissen G
    Mutant analysis, protein-protein interactions and subcellular localization of the Arabidopsis B sister (ABS) protein.
    Mol. Genet. Genomics, 2005. 274(2): p. 103-18
    [PMID:16080001]
  7. De Bodt S,Theissen G,Van de Peer Y
    Promoter analysis of MADS-box genes in eudicots through phylogenetic footprinting.
    Mol. Biol. Evol., 2006. 23(6): p. 1293-303
    [PMID:16581940]
  8. de Folter S, et al.
    A Bsister MADS-box gene involved in ovule and seed development in petunia and Arabidopsis.
    Plant J., 2006. 47(6): p. 934-46
    [PMID:16925602]
  9. Nesi N, et al.
    The promoter of the Arabidopsis thaliana BAN gene is active in proanthocyanidin-accumulating cells of the Brassica napus seed coat.
    Plant Cell Rep., 2009. 28(4): p. 601-17
    [PMID:19153740]
  10. Prasad K,Zhang X,Tob
    The Arabidopsis B-sister MADS-box protein, GORDITA, represses fruit growth and contributes to integument development.
    Plant J., 2010. 62(2): p. 203-14
    [PMID:20088901]
  11. Prasad K,Ambrose BA
    Shaping up the fruit: control of fruit size by an Arabidopsis B-sister MADS-box gene.
    Plant Signal Behav, 2010. 5(7): p. 899-902
    [PMID:20484990]
  12. Erdmann R,Gramzow L,Melzer R,Theissen G,Becker A
    GORDITA (AGL63) is a young paralog of the Arabidopsis thaliana B(sister) MADS box gene ABS (TT16) that has undergone neofunctionalization.
    Plant J., 2010. 63(6): p. 914-24
    [PMID:20598091]
  13. Mizzotti C, et al.
    The MADS box genes SEEDSTICK and ARABIDOPSIS Bsister play a maternal role in fertilization and seed development.
    Plant J., 2012. 70(3): p. 409-20
    [PMID:22176531]
  14. Severing EI, et al.
    Predicting the impact of alternative splicing on plant MADS domain protein function.
    PLoS ONE, 2012. 7(1): p. e30524
    [PMID:22295091]
  15. Jin J, et al.
    An Arabidopsis Transcriptional Regulatory Map Reveals Distinct Functional and Evolutionary Features of Novel Transcription Factors.
    Mol. Biol. Evol., 2015. 32(7): p. 1767-73
    [PMID:25750178]