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

XP_009140925.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

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

Family

M-type_MADS

Protein Properties

Length: 239aa MW: 27682.6 Da PI: 9.4814

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009140925.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	60.1	2.6e-19	17	62	4	49
-SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS SRF-TF 4 enksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49 e +s qvt+skRr+g++KKA EL++LC++e+ +++fs+ k++ + XP_009140925.1 17 EKDSDLQVTYSKRRQGLFKKATELCTLCGVEIGILVFSPGRKVFSF 62 667788*********************************9999887 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50066	22.665	6	66	IPR002100	Transcription factor, MADS-box
SMART	SM00432	9.8E-28	6	65	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	4.71E-24	7	83	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	3.8E-16	8	28	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	1.2E-21	15	62	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	3.8E-16	28	43	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	3.8E-16	43	64	IPR002100	Transcription factor, MADS-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005829	Cellular Component	cytosol
GO:0003677	Molecular Function	DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 239 aa Download sequence Send to blast
MARSRKGRQK IQIVKMEKDS DLQVTYSKRR QGLFKKATEL CTLCGVEIGI LVFSPGRKVF 60 SFGNPDVRYV FNRFKSYDQN PFQLNEFGPS VTIRGLNSIL SQELVKLEKE QARRTILEKI 120 RIQREETDKW WEKPPSELNL RQNTCLISVL ENLRMDLGSP RFQQAMVPQN YCGGSNNNIV 180 GGGNTDPLDE RSMFENAFNY NPNMMIPNQG PTLGYNNIKP EVFDPIYNMN WPEYKHGPY

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed during the syncytial endosperm development. {ECO:0000269\|PubMed:18334668}.
Uniprot	TISSUE SPECIFICITY: Expressed in the endosperm but not in the embryo. Detected in young siliques, roots, leaves, stems, young flowers and anthers. {ECO:0000269\|PubMed:18334668}.

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	XP_009140925.1

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009140925.1	1e-178	PREDICTED: agamous-like MADS-box protein AGL62
Swissprot	Q9FKK2	8e-57	AGL62_ARATH; Agamous-like MADS-box protein AGL62
TrEMBL	A0A078H4H1	1e-173	A0A078H4H1_BRANA; BnaA04g16540D protein
STRING	Bo4g165540.1	1e-165	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM16574	6	11

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G36590.1	2e-58	M-type_MADS family protein

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]