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_013619937.1

Organism

Brassica oleracea

Taxonomic ID

3712

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: 281aa MW: 31993.1 Da PI: 7.7349

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013619937.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	71.9	5.6e-23	18	62	5	49
SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS SRF-TF 5 nksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49 + n qvtfskR+ng++KKA EL++LCdae+av +fs++gk+y + XP_013619937.1 18 KENNLQVTFSKRKNGLFKKACELCTLCDAEIAVFVFSPSGKVYSF 62 56788**************************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	8.8E-31	6	65	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	23.128	6	66	IPR002100	Transcription factor, MADS-box
CDD	cd00265	2.29E-31	7	75	No hit	No description
SuperFamily	SSF55455	4.84E-25	7	81	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.1E-18	8	28	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	1.2E-23	16	62	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.1E-18	28	43	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.1E-18	43	64	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: 281 aa Download sequence Send to blast
MMKKSKGRQK TKMVKMDKEN NLQVTFSKRK NGLFKKACEL CTLCDAEIAV FVFSPSGKVY 60 SFGHLDVETI INRFEGIENP PLNPQPNMQL DEIHRNSPIQ DLNNDLTELM NQLELEQKKT 120 EDLKNKRKNS KVPEIWLKDS IGGLDLGQAK EFKGKLENLK KQVRHEAFKM LEGRYPHPSF 180 YVGSSSNALF GVDGGININP NMNLFDQRRM VNMNNFYNHN MALPNHPLPF GNYGHAEGFV 240 PGYNYIPEPN PTGNQNPSSK EENEAGNEHH HDGHSPDPRS D

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6bz1_A	4e-14	7	96	2	91	MEF2 CHIMERA
6bz1_B	4e-14	7	96	2	91	MEF2 CHIMERA
6bz1_C	4e-14	7	96	2	91	MEF2 CHIMERA
6bz1_D	4e-14	7	96	2	91	MEF2 CHIMERA
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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_013619937.1

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_013619937.1	0.0	PREDICTED: agamous-like MADS-box protein AGL62
Refseq	XP_013712956.1	0.0	agamous-like MADS-box protein AGL62
Swissprot	Q9FKK2	1e-89	AGL62_ARATH; Agamous-like MADS-box protein AGL62
TrEMBL	A0A3P6DDK5	0.0	A0A3P6DDK5_BRAOL; Uncharacterized protein
STRING	Bo2g024910.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM23286	4	4

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G60440.1	2e-86	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]