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

RrC31634_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

Protein Properties

Length: 124aa MW: 13775.4 Da PI: 4.3946

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC31634_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	64.2	2.1e-20	13	103	1	99
EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS B3 1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98 ffkv+ + ++s + +p +f e+ + + ++t +l+ g +W+v + +k ++ ++t+GW++F+++++Lk+g+f++F +dg+++f v+vf RrC31634_p1 13 FFKVF--LSETASESMAIPMSFSEHLQDP--LPQTAKLQGIGGGVWTVSF--KKIRDCAYFTSGWSKFAEDHELKDGEFLTFVYDGSHTF--EVSVFG 102 89999..666777779****9655655..899************..99998899**********************998888..888886 PP S CS B3 99 k 99 + RrC31634_p1 103 R 103 6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	1.0E-26	7	106	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	1.7E-24	9	106	IPR015300	DNA-binding pseudobarrel domain
PROSITE profile	PS50863	14.001	11	104	IPR003340	B3 DNA binding domain
CDD	cd10017	1.15E-20	11	101	No hit	No description
Pfam	PF02362	8.9E-18	13	102	IPR003340	B3 DNA binding domain
SMART	SM01019	2.0E-23	13	104	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: 124 aa Download sequence Send to blast
MSGSEEDVDL PRFFKVFLSE TASESMAIPM SFSEHLQDPL PQTAKLQGIG GGVWTVSFKK 60 IRDCAYFTSG WSKFAEDHEL KDGEFLTFVY DGSHTFEVSV FGRSGCKEMR AVVETVNLSD 120 ANSD

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1yel_A	6e-23	3	106	1	104	At1g16640
Search in ModeBase

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	AC189222	1e-114	AC189222.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB010M19, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018442734.1	3e-85	PREDICTED: B3 domain-containing protein REM20-like isoform X1
Refseq	XP_018442735.1	2e-85	PREDICTED: B3 domain-containing protein REM20-like isoform X2
Swissprot	Q8LAV5	2e-49	REM20_ARATH; B3 domain-containing protein REM20
TrEMBL	A0A078I9I2	4e-81	A0A078I9I2_BRANA; BnaC03g16210D protein
TrEMBL	A0A0D3B418	1e-80	A0A0D3B418_BRAOL; Uncharacterized protein
STRING	Bo3g023970.1	2e-81	(Brassica oleracea)

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	8e-52	B3 family protein

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]