PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Phvul.005G000900.1
Common NamePHAVU_005G000900g
Organism
Phaseolus vulgaris
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Phaseolus
Family MIKC_MADS
Protein Properties Length: 223aa    MW: 25721.4 Da    PI: 9.8113
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Phvul.005G000900.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF100.18.7e-32959151
                        S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
              SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                        krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+i+fss+g+lyeys+
  Phvul.005G000900.1  9 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSSRGRLYEYSN 59
                        79***********************************************95 PP
2K-box108.95.5e-3676172399
               K-box   3 kssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenka 93 
                         +ss++ ++e +a+++qqe+akL+++i++Lq+++Rhl+G+ L++L++keL+qLe++Le+++++iRskK+e+ll++ie+ qk+e el++en +
  Phvul.005G000900.1  76 HSSTSTTTEINAQYYQQESAKLRQQIQMLQNSNRHLMGDALSTLTVKELKQLENRLERGITRIRSKKHEMLLAEIEYFQKREIELENENLC 166
                         5666669999********************************************************************************* PP

               K-box  94 Lrkkle 99 
                         Lr+k+ 
  Phvul.005G000900.1 167 LRTKIT 172
                         ***986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006634.118161IPR002100Transcription factor, MADS-box
SMARTSM004321.3E-42160IPR002100Transcription factor, MADS-box
SuperFamilySSF554553.14E-33279IPR002100Transcription factor, MADS-box
CDDcd002655.20E-44276No hitNo description
PRINTSPR004045.0E-33323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003197.7E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004045.0E-332338IPR002100Transcription factor, MADS-box
PRINTSPR004045.0E-333859IPR002100Transcription factor, MADS-box
PfamPF014861.1E-2684171IPR002487Transcription factor, K-box
PROSITE profilePS5129715.15987177IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048316Biological Processseed development
GO:0048481Biological Processplant ovule development
GO:0080155Biological Processregulation of double fertilization forming a zygote and endosperm
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 223 aa     Download sequence    Send to blast
MGRGKIEIKR IENTTNRQVT FCKRRNGLLK KAYELSVLCD AEVALIVFSS RGRLYEYSNN  60
NIRSTIERYK KACSDHSSTS TTTEINAQYY QQESAKLRQQ IQMLQNSNRH LMGDALSTLT  120
VKELKQLENR LERGITRIRS KKHEMLLAEI EYFQKREIEL ENENLCLRTK ITDVERIQQV  180
NMVSGPELNA IQALASRNFF NPNMMEGGSV YPQSDKKILH LG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P2e-22182182Myocyte-specific enhancer factor 2B
1tqe_Q2e-22182182Myocyte-specific enhancer factor 2B
1tqe_R2e-22182182Myocyte-specific enhancer factor 2B
1tqe_S2e-22182182Myocyte-specific enhancer factor 2B
6c9l_A2e-22182182Myocyte-specific enhancer factor 2B
6c9l_B2e-22182182Myocyte-specific enhancer factor 2B
6c9l_C2e-22182182Myocyte-specific enhancer factor 2B
6c9l_D2e-22182182Myocyte-specific enhancer factor 2B
6c9l_E2e-22182182Myocyte-specific enhancer factor 2B
6c9l_F2e-22182182Myocyte-specific enhancer factor 2B
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in seed development (PubMed:21447172, Ref.1, PubMed:29853599). Plays a role in seed morphogenesis by promoting the correct development of endotesta cell layer, which directs the further development of the seed coat, the endosperm, and consequently the embryo (Ref.1, PubMed:29853599). {ECO:0000269|PubMed:21447172, ECO:0000269|PubMed:29853599, ECO:0000269|Ref.1}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPhvul.005G000900.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ3718990.0DQ371899.1 Glycine max MADS domain transporter AGL11 (AGL11) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_007148609.11e-164hypothetical protein PHAVU_005G000900g
RefseqXP_007148610.11e-164hypothetical protein PHAVU_005G000900g
RefseqXP_007148611.11e-164hypothetical protein PHAVU_005G000900g
RefseqXP_014523267.11e-164agamous-like MADS-box protein AGL11
RefseqXP_017425598.11e-164PREDICTED: agamous-like MADS-box protein AGL11
RefseqXP_017425599.11e-164PREDICTED: agamous-like MADS-box protein AGL11
RefseqXP_022632367.11e-164agamous-like MADS-box protein AGL11
RefseqXP_022632368.11e-164agamous-like MADS-box protein AGL11
RefseqXP_027921533.11e-164agamous-like MADS-box protein AGL11
RefseqXP_027921542.11e-164agamous-like MADS-box protein AGL11
RefseqXP_027921550.11e-164agamous-like MADS-box protein AGL11
RefseqXP_027921557.11e-164agamous-like MADS-box protein AGL11
SwissprotF6I4571e-137AG11C_VITVI; Agamous-like MADS-box protein AGL11
TrEMBLA0A0L9UK221e-162A0A0L9UK22_PHAAN; Uncharacterized protein
TrEMBLA0A0S3SJK71e-162A0A0S3SJK7_PHAAN; Uncharacterized protein
TrEMBLA0A1S3VYH01e-162A0A1S3VYH0_VIGRR; agamous-like MADS-box protein AGL11
TrEMBLA0A4D6M2601e-162A0A4D6M260_VIGUN; MADS-box transcription factor
TrEMBLV7BUA11e-162V7BUA1_PHAVU; Uncharacterized protein
STRINGXP_007148609.11e-163(Phaseolus vulgaris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF68429102
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G09960.11e-122MIKC_MADS family protein
Publications ? help Back to Top
  1. Jaillon O, et al.
    The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla.
    Nature, 2007. 449(7161): p. 463-7
    [PMID:17721507]
  2. Díaz-Riquelme J,Lijavetzky D,Martínez-Zapater JM,Carmona MJ
    Genome-wide analysis of MIKCC-type MADS box genes in grapevine.
    Plant Physiol., 2009. 149(1): p. 354-69
    [PMID:18997115]
  3. Mejía N, et al.
    Molecular, genetic and transcriptional evidence for a role of VvAGL11 in stenospermocarpic seedlessness in grapevine.
    BMC Plant Biol., 2011. 11: p. 57
    [PMID:21447172]
  4. Grimplet J,Martínez-Zapater JM,Carmona MJ
    Structural and functional annotation of the MADS-box transcription factor family in grapevine.
    BMC Genomics, 2016. 17: p. 80
    [PMID:26818751]
  5. Malabarba J, et al.
    The MADS-box gene Agamous-like 11 is essential for seed morphogenesis in grapevine.
    J. Exp. Bot., 2017. 68(7): p. 1493-1506
    [PMID:28369525]
  6. Royo C, et al.
    The Major Origin of Seedless Grapes Is Associated with a Missense Mutation in the MADS-Box Gene VviAGL11.
    Plant Physiol., 2018. 177(3): p. 1234-1253
    [PMID:29853599]