PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Vradi08g19770.1

Organism

Vigna radiata

Taxonomic ID

157791

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Vigna

Family

M-type_MADS

Protein Properties

Length: 190aa MW: 21357.4 Da PI: 9.5554

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Vradi08g19770.1	genome	SNU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	71.2	8.8e-23	19	67	1	49
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49 k+ +n+sn qvtfskRr g++KKA+EL++LC+a va+++fs+ k++ + Vradi08g19770.1 19 KKMSNESNLQVTFSKRRSGLFKKASELCTLCGAHVALVVFSPGEKVFSF 67 5689***************************************999887 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50066	24.6	11	71	IPR002100	Transcription factor, MADS-box
SMART	SM00432	3.1E-33	11	70	IPR002100	Transcription factor, MADS-box
CDD	cd00265	1.95E-34	12	80	No hit	No description
SuperFamily	SSF55455	7.19E-28	12	85	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.5E-19	13	33	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	1.2E-24	21	67	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.5E-19	33	48	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.5E-19	48	69	IPR002100	Transcription factor, MADS-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009960	Biological Process	endosperm development
GO:0003677	Molecular Function	DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 190 aa Download sequence Send to blast
MAMDSGAKKS RGRQKIEMKK MSNESNLQVT FSKRRSGLFK KASELCTLCG AHVALVVFSP 60 GEKVFSFGHP NVDAVIDRFL GRAPVQDSGT MQFIDAHRIS NVRDLNKQLT QVNELLETER 120 KRGEELSRLR KEAQELMWWT RPTEELSVEQ MEQYKTALEE LKKHQQHHGF DNMGMGGYGP 180 GPAPAGGFF*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6byy_A	5e-15	12	90	2	80	MEF2 CHIMERA
6byy_B	5e-15	12	90	2	80	MEF2 CHIMERA
6byy_C	5e-15	12	90	2	80	MEF2 CHIMERA
6byy_D	5e-15	12	90	2	80	MEF2 CHIMERA
6bz1_A	5e-15	12	94	2	84	MEF2 CHIMERA
6bz1_B	5e-15	12	94	2	84	MEF2 CHIMERA
6bz1_C	5e-15	12	94	2	84	MEF2 CHIMERA
6bz1_D	5e-15	12	94	2	84	MEF2 CHIMERA
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Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. Required for suppression of cellularization and promotion of nuclear proliferation during early endosperm development. The FERTILIZATION-INDEPENDENT SEED (FIS) polycomb complex is required for suppression of ALG62 expression at the end of the syncytial phase of endosperm development. {ECO:0000269\|PubMed:18334668}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Vradi08g19770.1

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AP015041	0.0	AP015041.1 Vigna angularis var. angularis DNA, chromosome 8, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_014511964.2	1e-117	agamous-like MADS-box protein AGL62
Swissprot	Q9FKK2	4e-63	AGL62_ARATH; Agamous-like MADS-box protein AGL62
TrEMBL	A0A1S3V1E3	1e-116	A0A1S3V1E3_VIGRR; agamous-like MADS-box protein AGL62
STRING	XP_007143149.1	1e-113	(Phaseolus vulgaris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF128	33	331

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G60440.1	3e-65	AGAMOUS-like 62

Publications ? help Back to Top
Xu W, et al. Endosperm and Nucellus Develop Antagonistically in Arabidopsis Seeds. Plant Cell, 2016. 28(6): p. 1343-60 [PMID:27233529] Figueiredo DD,Batista RA,Roszak PJ,Köhler C Auxin production couples endosperm development to fertilization. Nat Plants, 2015. 1: p. 15184 [PMID:27251719] Figueiredo DD,Batista RA,Roszak PJ,Hennig L,Köhler C Auxin production in the endosperm drives seed coat development in Arabidopsis. Elife, 2017. [PMID:27848912] Fiume E,Coen O,Xu W,Lepiniec L,Magnani E Growth of the Arabidopsis sub-epidermal integument cell layers might require an endosperm signal. Plant Signal Behav, 2017. 12(8): p. e1339000 [PMID:28613109] Zhang S, et al. FERTILIZATION-INDEPENDENT SEED-Polycomb Repressive Complex 2 Plays a Dual Role in Regulating Type I MADS-Box Genes in Early Endosperm Development. Plant Physiol., 2018. 177(1): p. 285-299 [PMID:29523711]