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

RrC401_p4

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: 309aa MW: 35192.6 Da PI: 9.6294

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC401_p4	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	49.1	1e-15	45	121	17	96
E--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTE..EEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEE CS B3 17 vlpkkfaeehggkkeesktltledesgrsWevkliyrkksgr..yvltkGWkeFvkangLkegDfvvFkldgrsefelvvkv 96 +p +f+++++ k e s++++l+ ++g sW++kl +k+++ y+ ++GW +F ++ngL + + ++F+++g+++f +v++ RrC401_p4 45 EIPQDFLKSISAK-EFSFKMVLNLPWGSSWRIKL--SKSQSFfyYMEKNGWDQFLSDNGLGDDELLTFTHKGNMCF--NVTI 121 69***999755.799*************..888777878888**************************..6555 PP
2	B3	51.4	2e-16	221	298	4	87
E-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS.-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS B3 4 vltpsdvlksgrlvlpkkfaeehggkkeesktltledesg.rsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 + ++s+vl +g +pk+fae h+ e++ ++ d++g +sWev + ++k ++ +++GW + vk+ gL++gD+++F+l++ RrC401_p4 221 TIKKSYVLFLG---IPKRFAEMHMP--MEETVFKIHDSKGkKSWEVMYVVSKIQS--RFSRGWPRLVKDFGLEVGDVCIFQLIKP 298 55667777665...*******63..355689999988879**5555555..599*******************9873 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	1.16E-15	14	129	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	1.1E-17	14	125	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.36E-14	17	122	No hit	No description
PROSITE profile	PS50863	11.152	29	125	IPR003340	B3 DNA binding domain
SMART	SM01019	1.7E-12	36	125	IPR003340	B3 DNA binding domain
Pfam	PF02362	3.0E-13	45	121	IPR003340	B3 DNA binding domain
SuperFamily	SSF101936	1.26E-20	212	305	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	2.9E-19	212	305	IPR015300	DNA-binding pseudobarrel domain
PROSITE profile	PS50863	12.59	215	309	IPR003340	B3 DNA binding domain
CDD	cd10017	1.98E-17	216	299	No hit	No description
SMART	SM01019	1.7E-15	218	309	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.0E-13	221	298	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: 309 aa Download sequence Send to blast
MGTNSCFGMI MEEGNNPGFF KVLRKEDLSS QTMILFLIMT CPKREIPQDF LKSISAKEFS 60 FKMVLNLPWG SSWRIKLSKS QSFFYYMEKN GWDQFLSDNG LGDDELLTFT HKGNMCFNVT 120 IYQINCLEML GPTRSATIAS SSGNKREQGR ESLSASSYPV SETAESTVGG RLRQKRELIN 180 LGKKQVKETE KSNKSKKRKM DTNSDDSEAG TSSHVPEFTL TIKKSYVLFL GIPKRFAEMH 240 MPMEETVFKI HDSKGKKSWE VMYVVSKIQS RFSRGWPRLV KDFGLEVGDV CIFQLIKPTE 300 MILSVSNSM

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00517	DAP	Transfer from AT5G18090	Download

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018444661.1	0.0	PREDICTED: B3 domain-containing protein At5g18090
Swissprot	Q9FK61	1e-108	Y5809_ARATH; B3 domain-containing protein At5g18090
TrEMBL	A0A3P6D323	0.0	A0A3P6D323_BRACM; Uncharacterized protein
STRING	Bra002132.1-P	0.0	(Brassica rapa)

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
AT5G18090.1	1e-110	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]