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

Cagra.0612s0056.1.p

Organism

Capsella grandiflora

Taxonomic ID

264402

Taxonomic Lineage

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

Family

Protein Properties

Length: 283aa MW: 31769.3 Da PI: 4.435

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cagra.0612s0056.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	65	1.2e-20	13	103	1	99
EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90 ffkv++++++ s + +p +f+e+ + + t +l+ + gr W+v++ +k ++++++t+GW++F+++++L +g+f++F +dg+++f Cagra.0612s0056.1.p 13 FFKVFLSESA--SESFAIPLSFMEHLADP--LPNTAKLQGTGGRDWTVNM--TKIRDGVYFTAGWSKFAQDHELVDGEFLTFVYDGHRTF 96 8999955555..5558*****666655..889************..******************************998777 PP ..EEEEE-S CS B3 91 elvvkvfrk 99 v+vf++ Cagra.0612s0056.1.p 97 --EVSVFSR 103 ..8888875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd10017	1.07E-19	11	102	No hit	No description
SuperFamily	SSF101936	1.47E-22	11	103	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	8.5E-23	11	103	IPR015300	DNA-binding pseudobarrel domain
PROSITE profile	PS50863	13.521	11	104	IPR003340	B3 DNA binding domain
SMART	SM01019	6.4E-21	13	104	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.2E-17	13	103	IPR003340	B3 DNA binding domain
Gene3D	G3DSA:2.40.330.10	2.7E-5	184	279	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	2.35E-7	184	278	IPR015300	DNA-binding pseudobarrel domain
SMART	SM01019	0.11	188	277	IPR003340	B3 DNA binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 283 aa Download sequence Send to blast
MDEHDDDVLL PRFFKVFLSE SASESFAIPL SFMEHLADPL PNTAKLQGTG GRDWTVNMTK 60 IRDGVYFTAG WSKFAQDHEL VDGEFLTFVY DGHRTFEVSV FSRLGCKETR AEVEAIAVDG 120 SSSDSDGSSS DSEEEKELSM DIYGDTSLGE DEEISQSLYP LEDEETESDA AAVVEGNLDI 180 EALTNPHFST TLKNRIYELL IPANVVKENK LTFGDSVKYI DGEGTLVGLR GKWADDRICF 240 KGWDRICRRN RLKKHQDTVE CELLHDRNKV HSIRVHIMRG TT*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1yel_A	4e-21	12	106	10	104	At1g16640
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Cagra.0612s0056.1.p

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_006293000.1	0.0	B3 domain-containing protein REM20
Swissprot	Q8LAV5	1e-129	REM20_ARATH; B3 domain-containing protein REM20
TrEMBL	R0HPM7	0.0	R0HPM7_9BRAS; Uncharacterized protein
STRING	Cagra.0612s0056.1.p	0.0	(Capsella grandiflora)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1561	23	80

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G53310.1	1e-128	B3 family protein

Link Out ? help Back to Top
Phytozome	Cagra.0612s0056.1.p

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Mantegazza O, et al. Analysis of the arabidopsis REM gene family predicts functions during flower development. Ann. Bot., 2014. 114(7): p. 1507-15 [PMID:25002525]