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

RrC19558_p1

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: 220aa MW: 25037.1 Da PI: 8.7009

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC19558_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	107	9.4e-34	16	122	1	99
EEEE-..-HHHHTT-EE--HHH.HTT........---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS.SE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh........ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr.se 89 f+k ltpsdv+k++rlv+pk++ae++ ++ e+++ l++edesg+sW+++++y+++s++yvltkGW+++vk+++L++gD+v F+++ r + RrC19558_p1 16 FEKSLTPSDVGKLNRLVIPKQYAEKYlplnngggDMTAEKGMLLSFEDESGKSWKFRYSYWNSSQSYVLTKGWSKYVKDKHLDAGDVVFFQRH-RfDF 112 99****************************9978888**************************************************65.4488 PP E..EEEEE-S CS B3 90 felvvkvfrk 99 +l+++++r+ RrC19558_p1 113 HRLFIGWRRR 122 8899999987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	1.1E-39	12	131	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	6.41E-32	13	128	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	5.07E-31	15	113	No hit	No description
SMART	SM01019	4.5E-25	16	123	IPR003340	B3 DNA binding domain
Pfam	PF02362	2.1E-30	16	122	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	14.452	16	123	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: 220 aa Download sequence Send to blast
MSCPLHLHQI VPTSLFEKSL TPSDVGKLNR LVIPKQYAEK YLPLNNGGGD MTAEKGMLLS 60 FEDESGKSWK FRYSYWNSSQ SYVLTKGWSK YVKDKHLDAG DVVFFQRHRF DFHRLFIGWR 120 RRGEASYPSA ASAVSQEVHV NTTAYWSGLT TPYRQVHTST SSYPNIHQEY SQYGAVAETP 180 TVVARSSRTV RLFGVNLECH GDVVEPPPCP DGYNGQHIYY

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5os9_A	5e-46	15	122	7	113	B3 domain-containing transcription factor NGA1
5os9_B	5e-46	15	122	7	113	B3 domain-containing transcription factor NGA1
Search in ModeBase

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_018487198.1	1e-154	PREDICTED: B3 domain-containing protein At3g11580-like
Refseq	XP_018487199.1	1e-154	PREDICTED: B3 domain-containing protein At3g11580-like
Swissprot	Q8RYD3	1e-117	Y3158_ARATH; B3 domain-containing protein At3g11580
TrEMBL	A0A0D3BAS0	1e-136	A0A0D3BAS0_BRAOL; Uncharacterized protein
STRING	Bo3g064320.1	1e-137	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1220	28	100

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G11580.1	1e-119	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]