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

Carubv10014761m

Common Name

CARUB_v10014761mg

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: 177aa MW: 20276.8 Da PI: 6.8006

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10014761m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	60.5	2e-19	11	57	3	49
--SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS SRF-TF 3 ienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49 ++++ +qvtfskRr g++KKA+EL +LC+aev +++fs+ +k y + Carubv10014761m 11 VQDTNTKQVTFSKRRLGLFKKASELATLCNAEVGIVVFSPGNKPYSF 57 5678889*********************************9998877 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50066	24.796	1	61	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	7.06E-25	1	71	IPR002100	Transcription factor, MADS-box
SMART	SM00432	6.7E-31	1	60	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	2.6E-18	3	23	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	5.8E-23	12	57	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	2.6E-18	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	2.6E-18	38	59	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: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: 177 aa Download sequence Send to blast
MGRRKIKMEE VQDTNTKQVT FSKRRLGLFK KASELATLCN AEVGIVVFSP GNKPYSFGKP 60 NFDLIAERFK SEFEETDSFE TSSGYRRGSR ARQEKKICKR LNSVVEDAEA EKKHGEDLHN 120 WLESAEEDRF NKPIDEFTLE ELKEFEAKMK RLRGGIQSNI DHMQASSSLL FLSNDD*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1tqe_P	2e-15	1	88	1	92	Myocyte-specific enhancer factor 2B
1tqe_Q	2e-15	1	88	1	92	Myocyte-specific enhancer factor 2B
1tqe_R	2e-15	1	88	1	92	Myocyte-specific enhancer factor 2B
1tqe_S	2e-15	1	88	1	92	Myocyte-specific enhancer factor 2B
6byy_A	1e-15	1	81	1	87	MEF2 CHIMERA
6byy_B	1e-15	1	81	1	87	MEF2 CHIMERA
6byy_C	1e-15	1	81	1	87	MEF2 CHIMERA
6byy_D	1e-15	1	81	1	87	MEF2 CHIMERA
6c9l_A	2e-15	1	88	1	92	Myocyte-specific enhancer factor 2B
6c9l_B	2e-15	1	88	1	92	Myocyte-specific enhancer factor 2B
6c9l_C	2e-15	1	88	1	92	Myocyte-specific enhancer factor 2B
6c9l_D	2e-15	1	88	1	92	Myocyte-specific enhancer factor 2B
6c9l_E	2e-15	1	88	1	92	Myocyte-specific enhancer factor 2B
6c9l_F	2e-15	1	88	1	92	Myocyte-specific enhancer factor 2B
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10014761m

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	AC036106	1e-142	AC036106.6 Arabidopsis thaliana chromosome 3 BAC T8E24 genomic sequence, complete sequence.
GenBank	CP002686	1e-142	CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.
GenBank	DQ056634	1e-142	DQ056634.1 Arabidopsis thaliana MADS-box family protein (At3g66656) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006296625.1	1e-127	agamous-like MADS-box protein AGL29
Swissprot	O64703	8e-61	AGL29_ARATH; Agamous-like MADS-box protein AGL29
TrEMBL	R0HZP1	1e-126	R0HZP1_9BRAS; Uncharacterized protein
STRING	Cagra.0133s0015.1.p	1e-127	(Capsella grandiflora)
STRING	XP_006296625.1	1e-127	(Capsella rubella)

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	4e-95	AGAMOUS-like 91

Link Out ? help Back to Top
Phytozome	Carubv10014761m
Entrez Gene	17891733

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]