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

Rsa1.0_13506.1_g00002.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

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

Family

M-type_MADS

Protein Properties

Length: 185aa MW: 20841.4 Da PI: 5.0469

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_13506.1_g00002.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	56.7	3.2e-18	11	57	3	49
--SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS SRF-TF 3 ienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49 ++++ +qvtfskRr g++KKA EL +LC+aev +++fs+ +k y y Rsa1.0_13506.1_g00002.1 11 VQDTNTKQVTFSKRRLGLFKKAGELATLCNAEVGIMVFSPGNKPYPY 57 6788899*********************************9998776 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	1.4E-31	1	60	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	25.175	1	61	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	2.49E-25	1	73	IPR002100	Transcription factor, MADS-box
CDD	cd00265	4.29E-31	2	75	No hit	No description
PRINTS	PR00404	1.6E-18	3	23	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	1.3E-20	11	57	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.6E-18	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.6E-18	38	59	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: 185 aa Download sequence Send to blast
MGRRKIKMEK VQDTNTKQVT FSKRRLGLFK KAGELATLCN AEVGIMVFSP GNKPYPYGSP 60 SFELVAERYN NESEDPDSGD SDSGETSGDG RATRERQGKR ICNRLNSIMG QVEAEKKRGE 120 DLVYQLETAG EAKFDKPIEE LSLEELKEYE AKMMDMHDQI ESNIARMETS STLVIMSKNA 180 RNSLE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6byy_A	1e-17	1	86	1	87	MEF2 CHIMERA
6byy_B	1e-17	1	86	1	87	MEF2 CHIMERA
6byy_C	1e-17	1	86	1	87	MEF2 CHIMERA
6byy_D	1e-17	1	86	1	87	MEF2 CHIMERA
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Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_13506.1_g00002.1

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	AC189233	3e-94	AC189233.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB013O20, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018488313.1	1e-132	PREDICTED: agamous-like MADS-box protein AGL29
Swissprot	O64703	9e-59	AGL29_ARATH; Agamous-like MADS-box protein AGL29
TrEMBL	A0A398A7D7	2e-91	A0A398A7D7_BRACM; Uncharacterized protein
TrEMBL	M4CAI0	2e-91	M4CAI0_BRARP; Uncharacterized protein
STRING	Bra001209.1-P	4e-92	(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
AT3G66656.1	9e-65	AGAMOUS-like 91

Publications ? help Back to Top
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]