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_00099.1_g00006.1

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: 291aa MW: 32862.5 Da PI: 4.2293

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00099.1_g00006.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	46.8	5.4e-15	16	100	3	90
EE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS-EEEEEE..EEETTE...EEE-TTHHHHHHHHT--TT-EEEEE CS B3 3 kvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesgrsWevkliyrkksgr...yvltkGWkeFvkangLkegDfvvFk 83 v +p+d + + l +p +f ++ + +k++t+++ +g++W++kl+ k++g + + +GWk+ vk+ +Lk g+f+ F+ Rsa1.0_00099.1_g00006.1 16 RVYLPND--SGDDLEIPVSFS-SYlpS---SVPKDVTVRSINGNVWKLKLR--KRRGDpakFSMVDGWKRIVKDEDLKGGEFLAFE 93 5554444..445699***8.77443...35679***********5..44444456*********************** PP E-SSSEE CS B3 84 ldgrsef 90 +dg++ f Rsa1.0_00099.1_g00006.1 94 FDGSRLF 100 9885444 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	3.14E-18	10	110	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	4.2E-17	10	107	IPR015300	DNA-binding pseudobarrel domain
PROSITE profile	PS50863	12.196	12	108	IPR003340	B3 DNA binding domain
CDD	cd10017	5.60E-15	12	105	No hit	No description
SMART	SM01019	1.9E-15	14	108	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.5E-12	16	98	IPR003340	B3 DNA binding domain
Gene3D	G3DSA:2.40.330.10	1.1E-5	188	288	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	2.35E-8	188	285	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: 291 aa Download sequence Send to blast
MKKGDSCVDR LPKFFRVYLP NDSGDDLEIP VSFSSYLPSS VPKDVTVRSI NGNVWKLKLR 60 KRRGDPAKFS MVDGWKRIVK DEDLKGGEFL AFEFDGSRLF DFCIYGQGTC KKLGKPTEIE 120 EDESDDDDDD DDDVIVINDE DDDDGDDVEA DNDDVEANDE DVDVNDEDLD VDDGMEADDD 180 DDRKVLDDPD SPSFTVILNP KKKSQLLIPS HIMKDYNIHF TERIAIIDPL VAKFGTLERK 240 IKFQDNGSVF VKGFGSVFRR NNVTTADKMV IEVKKNGNNV AHILKVHIVR G

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1yel_A	8e-13	13	110	10	104	At1g16640
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	56	62	LKLRKRR

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_00099.1_g00006.1

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_018457632.1	1e-159	PREDICTED: B3 domain-containing protein At5g60130-like
Swissprot	Q9LVG1	2e-97	Y5013_ARATH; B3 domain-containing protein At5g60130
TrEMBL	A0A397XKD3	1e-132	A0A397XKD3_BRACM; Uncharacterized protein
STRING	Bo9g141110.1	1e-132	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4947	18	43

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G60142.1	2e-51	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]