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_05139.1_g00003.1

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: 347aa MW: 39520.8 Da PI: 4.3969

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_05139.1_g00003.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	53.1	5.6e-17	19	114	1	96
EEEE-..-HHHHT....T-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTE.EEE-TTHHHHHHHHT--TT-EEE CS B3 1 ffkvltpsdvlks....grlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgr.yvltkGWkeFvkangLkegDfvv 81 ffk+l ++d +++ + ++p + ++++ + +s++++l+ ++g sW+vk+ +k+++ y+ +GW++Fv++n L e++ ++ Rsa1.0_05139.1_g00003.1 19 FFKILRREDLSSEiiisCGRMIPHDIIRSIPDN-SSSFKMVLKVQWGSSWTVKI--SKNPSFhYMEDDGWNQFVNDNALGENEYLT 101 78888777777777777889********766.5899************..99999957777*************** PP EEE-SSSEE..EEEE CS B3 82 Fkldgrsefelvvkv 96 F+++ ++ f +v + Rsa1.0_05139.1_g00003.1 102 FTHEANMLF--NVNI 114 9887877..5555 PP
2	B3	38.9	1.6e-12	229	307	15	99
-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS B3 15 rlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99 l +pk f+e h+ k e+k +++ e sW+v + ++ + +++GW++ ++ gL +gD+++Fkl++ e++vkv r+ Rsa1.0_05139.1_g00003.1 229 FLGVPKAFMEMHMPK--ETKWFKIRPEGKDSWDVLY--LVTDVQSRFSAGWSRLSRELGLVVGDVCTFKLIK--PSEMLVKVSRH 307 4779******866..455788889999***..555555669********************997..45569999886 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	1.5E-17	14	118	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	5.69E-17	15	118	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	2.32E-15	17	115	No hit	No description
SMART	SM01019	2.7E-17	19	118	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.434	23	118	IPR003340	B3 DNA binding domain
Pfam	PF02362	2.9E-14	30	112	IPR003340	B3 DNA binding domain
Gene3D	G3DSA:2.40.330.10	1.4E-16	213	307	IPR015300	DNA-binding pseudobarrel domain
PROSITE profile	PS50863	10.912	215	308	IPR003340	B3 DNA binding domain
SuperFamily	SSF101936	1.16E-18	215	307	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.22E-13	216	306	No hit	No description
SMART	SM01019	2.6E-15	218	308	IPR003340	B3 DNA binding domain
Pfam	PF02362	9.7E-9	229	307	IPR003340	B3 DNA binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009553	Biological Process	embryo sac development
GO:0009567	Biological Process	double fertilization forming a zygote and endosperm
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 347 aa Download sequence Send to blast
MVRNSGFGQI MEEGDSPGFF KILRREDLSS EIIISCGRMI PHDIIRSIPD NSSSFKMVLK 60 VQWGSSWTVK ISKNPSFHYM EDDGWNQFVN DNALGENEYL TFTHEANMLF NVNIYEPDGM 120 EILRPRESAT IASSSGMNKG EQREGVYKHV KEETVSSSDS SYHSLKKAES AGSRLKKKNE 180 LNLGEKKAEE AEKPKKSTKK KKVEIDLEAG ISSLVPQFSI TIKKSHLVFL GVPKAFMEMH 240 MPKETKWFKI RPEGKDSWDV LYLVTDVQSR FSAGWSRLSR ELGLVVGDVC TFKLIKPSEM 300 LVKVSRHDED DIEEEDDEDE NDDDDDDDDE DDEDDADGYD DDDESED

Sequence ? help Back to Top

Protein Sequence Length: 347 aa Download sequence Send to blast

MVRNSGFGQI MEEGDSPGFF KILRREDLSS EIIISCGRMI PHDIIRSIPD NSSSFKMVLK  60
VQWGSSWTVK ISKNPSFHYM EDDGWNQFVN DNALGENEYL TFTHEANMLF NVNIYEPDGM  120
EILRPRESAT IASSSGMNKG EQREGVYKHV KEETVSSSDS SYHSLKKAES AGSRLKKKNE  180
LNLGEKKAEE AEKPKKSTKK KKVEIDLEAG ISSLVPQFSI TIKKSHLVFL GVPKAFMEMH  240
MPKETKWFKI RPEGKDSWDV LYLVTDVQSR FSAGWSRLSR ELGLVVGDVC TFKLIKPSEM  300
LVKVSRHDED DIEEEDDEDE NDDDDDDDDE DDEDDADGYD DDDESED

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_05139.1_g00003.1

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_018467997.1	0.0	PREDICTED: B3 domain-containing protein At5g18000-like
Swissprot	Q9FJG2	1e-133	Y5800_ARATH; B3 domain-containing protein At5g18000
TrEMBL	A0A3P6CLR2	1e-159	A0A3P6CLR2_BRAOL; Uncharacterized protein
STRING	XP_006400343.1	1e-154	(Eutrema salsugineum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM565	21	135

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G18000.1	1e-127	VERDANDI

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] Mendes MA, et al. Live and let die: a REM complex promotes fertilization through synergid cell death in Arabidopsis. Development, 2016. 143(15): p. 2780-90 [PMID:27338615]