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_23792.1_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: 223aa MW: 25452 Da PI: 4.3778

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_23792.1_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	34.1	4.8e-11	4	42	59	99
EEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS B3 59 yvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99 ++t+GW++F+++++Lk+g+f++F +dg+++f v+vf + Rsa1.0_23792.1_g00001.1 4 AYFTSGWSKFAEDHELKDGEFLTFVYDGSHTF--EVSVFGR 42 589***********************998888..8888766 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50863	11.575	1	43	IPR003340	B3 DNA binding domain
CDD	cd10017	8.71E-10	1	40	No hit	No description
SuperFamily	SSF101936	2.16E-12	3	45	IPR015300	DNA-binding pseudobarrel domain
Pfam	PF02362	6.5E-8	4	41	IPR003340	B3 DNA binding domain
Gene3D	G3DSA:2.40.330.10	2.3E-11	4	45	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	4.8E-6	127	206	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	7.46E-9	127	206	IPR015300	DNA-binding pseudobarrel 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: 223 aa Download sequence Send to blast
RDCAYFTSGW SKFAEDHELK DGEFLTFVYD GSHTFEVSVF GRSGCKEMRA VVETVNLSDA 60 NSEEEEEEDS SVAADSNEEE EEEGDDDPSF DAGEDERVSQ SLYPVDSDDT VSNAEVVAGF 120 SNLEVESNPW FTTTLKNRIY ELLIPANVVK EHGLTFCDRI KYIDAEGIMH GAKGKWSDDR 180 ICFKGWDRIC RRNRLKEFDI VHCEMLHIRK KVHSIKITIT RGR

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_23792.1_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	AC189222	1e-78	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	1e-164	PREDICTED: B3 domain-containing protein REM20-like isoform X1
Swissprot	Q8LAV5	3e-72	REM20_ARATH; B3 domain-containing protein REM20
TrEMBL	A0A397YLL8	1e-129	A0A397YLL8_BRACM; Uncharacterized protein
STRING	Bra003130.1-P	1e-128	(Brassica rapa)

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	3e-68	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]