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

Carubv10010156m

Common Name

CARUB_v10010156mg

Organism

Capsella rubella

Taxonomic ID

81985

Taxonomic Lineage

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

Family

M-type_MADS

Protein Properties

Length: 239aa MW: 27348 Da PI: 9.6573

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10010156m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	71	1.1e-22	17	62	4	49
-SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS SRF-TF 4 enksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49 n++n qvtfskRr g++KKA+EL++LCda++a+++fs++gk++ + Carubv10010156m 17 TNETNLQVTFSKRRSGLFKKASELCTLCDANIAILLFSPSGKVFSF 62 699****************************************988 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50066	25.399	6	66	IPR002100	Transcription factor, MADS-box
SMART	SM00432	1.7E-33	6	65	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	1.31E-24	7	72	IPR002100	Transcription factor, MADS-box
CDD	cd00265	5.83E-31	7	72	No hit	No description
PRINTS	PR00404	2.2E-20	8	28	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	4.8E-24	16	62	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	2.2E-20	28	43	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	2.2E-20	43	64	IPR002100	Transcription factor, MADS-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009911	Biological Process	positive regulation of flower development
GO:0005634	Cellular Component	nucleus
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
MVKNNLGRRK VEMVKMTNET NLQVTFSKRR SGLFKKASEL CTLCDANIAI LLFSPSGKVF 60 SFGHPDLSLL LDNSPERISN IDLDHGSRNP YLQMLNDRYA ELMAGKEREQ MKRAMIVQNQ 120 RRNNEPDNWW RISTEELSFG QLARMKLALE VLRRKVEETA SQFHQTNANY YIGSSGTAAS 180 EPVNGGNVST NQELFHPIYS LPFGFNVMNR TPAGYNHTLI HQNLEFKHPH PYHGPRYY*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6byy_A	4e-15	6	71	1	66	MEF2 CHIMERA
6byy_B	4e-15	6	71	1	66	MEF2 CHIMERA
6byy_C	4e-15	6	71	1	66	MEF2 CHIMERA
6byy_D	4e-15	6	71	1	66	MEF2 CHIMERA
6bz1_A	5e-15	6	71	1	66	MEF2 CHIMERA
6bz1_B	5e-15	6	71	1	66	MEF2 CHIMERA
6bz1_C	5e-15	6	71	1	66	MEF2 CHIMERA
6bz1_D	5e-15	6	71	1	66	MEF2 CHIMERA
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor that may function as a floral promoter operating upstream of known floral activators in the autonomous pathway. {ECO:0000269\|PubMed:16899218}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10010156m

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006304156.1	1e-180	agamous-like MADS-box protein AGL28
Swissprot	Q9LMM8	3e-87	AGL28_ARATH; Agamous-like MADS-box protein AGL28
TrEMBL	R0I479	1e-179	R0I479_9BRAS; Uncharacterized protein
STRING	Cagra.1968s0094.1.p	1e-180	(Capsella grandiflora)
STRING	XP_006304156.1	1e-180	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM17507	7	10

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G01530.1	1e-89	AGAMOUS-like 28

Link Out ? help Back to Top
Phytozome	Carubv10010156m
Entrez Gene	17897044

Publications ? help Back to Top
Cheng JZ,Zhou YP,Lv TX,Xie CP,Tian CE Research progress on the autonomous flowering time pathway in Arabidopsis. Physiol Mol Biol Plants, 2017. 23(3): p. 477-485 [PMID:28878488] 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]