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

Rsa1.0_58760.1_g00001.1

Organism

Raphanus sativus

Taxonomic ID

3726

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: 81aa MW: 9265.57 Da PI: 7.6831

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_58760.1_g00001.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	45.5	1.4e-14	3	74	17	94
E--HHH.HTT...---..--SEEEEEE.TTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EE CS B3 17 vlpkkfaeeh...ggkkeesktltled.esgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvv 94 ++p f ++h + + + +++l++ s +Wevk+ ++++ lt+GW++F+ + ++gD+v+F++dg+ f +v Rsa1.0_58760.1_g00001.1 3 SIPIAFYSKHitnE--DNVNAMVKLRSdASDLTWEVKM--DGRR----LTQGWQKFATKHAFQVGDIVIFRHDGDLLF--HV 74 79******9742..334568999886888***..9998....*********************8875433..44 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM01019	4.2E-7	1	80	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	12.266	1	80	IPR003340	B3 DNA binding domain
Gene3D	G3DSA:2.40.330.10	3.3E-16	2	80	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	1.45E-15	3	80	IPR015300	DNA-binding pseudobarrel domain
Pfam	PF02362	8.9E-10	3	69	IPR003340	B3 DNA binding domain
CDD	cd10017	3.48E-11	3	77	No hit	No description

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: 81 aa Download sequence Send to blast
MQSIPIAFYS KHITNEDNVN AMVKLRSDAS DLTWEVKMDG RRLTQGWQKF ATKHAFQVGD 60 IVIFRHDGDL LFHVTPFGPS C

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_58760.1_g00001.1

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	AC189431	2e-56	AC189431.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB068B07, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018488297.1	2e-52	PREDICTED: B3 domain-containing protein REM10-like
Swissprot	Q84WP3	4e-28	REM17_ARATH; B3 domain-containing protein REM17
TrEMBL	A0A078JJX0	1e-40	A0A078JJX0_BRANA; BnaC03g73290D protein
STRING	Bo3g063950.1	5e-40	(Brassica oleracea)
STRING	Bo5g136900.1	4e-40	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM204	22	261

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G26680.1	2e-30	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]