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

RrC33323_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: 113aa MW: 13119 Da PI: 6.0762

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC33323_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	48.4	1.7e-15	20	93	15	95
-EE--HHH.HTT.---..--SEEEEEE.TTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEE CS B3 15 rlvlpkkfaeeh.ggkkeesktltled.esgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvk 95 l++p f+++h +gk +++ t tl++ + ++W+v + ++ lt+GWkeF++a++L+ gD+v+Fkl+g++ f +v+ RrC33323_p1 20 YLTIPIVFFSKHiQGK-TNGNTWTLTSdATDQTWQVIQ--EERR----LTRGWKEFAEAHDLRIGDIVIFKLEGSMVF--HVT 93 599*******7555.55668888775899*99..7777....**********************998888..666 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	1.0E-20	3	100	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	4.12E-20	3	105	IPR015300	DNA-binding pseudobarrel domain
PROSITE profile	PS50863	12.421	6	98	IPR003340	B3 DNA binding domain
CDD	cd10017	1.66E-14	8	95	No hit	No description
SMART	SM01019	1.2E-17	9	98	IPR003340	B3 DNA binding domain
Pfam	PF02362	2.3E-10	20	90	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: 113 aa Download sequence Send to blast
MAQPQELHFF QPLLPGFQTY LTIPIVFFSK HIQGKTNGNT WTLTSDATDQ TWQVIQEERR 60 LTRGWKEFAE AHDLRIGDIV IFKLEGSMVF HVTPFGPSCC DIQYTSIFDF SKF

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	AC189599	1e-135	AC189599.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH014H10, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018438527.1	9e-76	PREDICTED: B3 domain-containing protein REM7-like
Refseq	XP_018461325.1	9e-76	PREDICTED: B3 domain-containing protein REM7-like
Refseq	XP_018483785.1	9e-76	PREDICTED: B3 domain-containing protein REM7-like
Swissprot	O81778	4e-45	REM9_ARATH; B3 domain-containing protein REM9
Swissprot	Q8H2D0	1e-46	REM7_ARATH; B3 domain-containing protein REM7
TrEMBL	A0A078H3S7	9e-68	A0A078H3S7_BRANA; BnaA01g19720D protein
TrEMBL	A0A3P5YP81	1e-68	A0A3P5YP81_BRACM; Uncharacterized protein
TrEMBL	M4DJU4	2e-68	M4DJU4_BRARP; Uncharacterized protein
TrEMBL	M4F5X8	1e-68	M4F5X8_BRARP; Uncharacterized protein
STRING	Bra016772.1-P	3e-69	(Brassica rapa)
STRING	Bra036483.1-P	2e-68	(Brassica rapa)
STRING	Bra036486.1-P	2e-69	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM16565	3	13

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G31660.1	6e-49	B3 family protein

Publications ? help Back to Top
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] Wang S, et al. Chloroplast RNA-Binding Protein RBD1 Promotes Chilling Tolerance through 23S rRNA Processing in Arabidopsis. PLoS Genet., 2016. 12(5): p. e1006027 [PMID:27138552]