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

676740020

Organism

Sisymbrium irio

Taxonomic ID

3730

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Sisymbrieae; Sisymbrium

Family

M-type_MADS

Protein Properties

Length: 344aa MW: 38682.4 Da PI: 9.7108

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
676740020	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	73.1	2.3e-23	16	63	2	49
---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS SRF-TF 2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49 +ien+ n qvtfskRr g++KKA+E+++LCda+va+i+fs+ +k++ + 676740020 16 KIENENNLQVTFSKRRFGLFKKASEICTLCDAQVALIVFSPGQKVFSF 63 59******************************************9987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	6.8E-33	7	66	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	24.67	7	67	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	1.57E-27	8	82	IPR002100	Transcription factor, MADS-box
CDD	cd00265	4.56E-35	8	79	No hit	No description
PRINTS	PR00404	1.6E-19	9	29	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	8.6E-25	16	63	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.6E-19	29	44	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.6E-19	44	65	IPR002100	Transcription factor, MADS-box

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

Sequence ? help Back to Top
Protein Sequence Length: 344 aa Download sequence Send to blast
MARRKSRGRQ KIRMVKIENE NNLQVTFSKR RFGLFKKASE ICTLCDAQVA LIVFSPGQKV 60 FSFGHPNVNT IINRFLSNNP PPSNVAPSNV PPSSVPPSSV PPSIVPPSSV PPSIVPPSSV 120 PPSIVPPSIV PSSIVPPSSF LPFNNPSANQ HANIQLNEVR RNSIIRDLNN DLTQSHMVMN 180 QLESEKKKYE ELKKIRKNSR MPVTWWENPI EEFDPAQAKE FKGNLDNLKK LITSEASKIF 240 QASIPHQNFY MGSSSNAPYI DDGGNNINPN MNTNAFYNPN IAFPNHPLPF GTNNHAGRFV 300 PEYNMNYRPE HNQNQNLSFK NEDNPENEHE HQHDGHPPHS RSDH

Sequence ? help Back to Top

Protein Sequence Length: 344 aa Download sequence Send to blast

MARRKSRGRQ KIRMVKIENE NNLQVTFSKR RFGLFKKASE ICTLCDAQVA LIVFSPGQKV  60
FSFGHPNVNT IINRFLSNNP PPSNVAPSNV PPSSVPPSSV PPSIVPPSSV PPSIVPPSSV  120
PPSIVPPSIV PSSIVPPSSF LPFNNPSANQ HANIQLNEVR RNSIIRDLNN DLTQSHMVMN  180
QLESEKKKYE ELKKIRKNSR MPVTWWENPI EEFDPAQAKE FKGNLDNLKK LITSEASKIF  240
QASIPHQNFY MGSSSNAPYI DDGGNNINPN MNTNAFYNPN IAFPNHPLPF GTNNHAGRFV  300
PEYNMNYRPE HNQNQNLSFK NEDNPENEHE HQHDGHPPHS RSDH

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1egw_A	6e-17	8	81	1	74	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_B	6e-17	8	81	1	74	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_C	6e-17	8	81	1	74	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_D	6e-17	8	81	1	74	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
Search in ModeBase

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	676740020

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013666237.1	1e-62	agamous-like MADS-box protein AGL62
Swissprot	Q9FKK2	1e-55	AGL62_ARATH; Agamous-like MADS-box protein AGL62
TrEMBL	A0A078H250	3e-61	A0A078H250_BRANA; BnaA10g13240D protein
TrEMBL	A0A397XS93	3e-61	A0A397XS93_BRACM; Uncharacterized protein
STRING	Bra002480.1-P	7e-61	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM86	28	390

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G60440.1	2e-41	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]