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

RrC4601_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

AP2

Protein Properties

Length: 389aa MW: 43392.9 Da PI: 10.0033

Description

AP2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC4601_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	55.8	1.1e-17	164	213	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 s+y+GV++++++grW+++I+d + k+++lg f+ta+ Aa+a+++a+ k++g RrC4601_p1 164 SQYRGVTFYRRTGRWESHIWD------CgKQVYLGGFDTAYAAARAYDRAAIKFRG 213 78*****************......55**********************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF00847	2.3E-9	164	213	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	2.88E-15	164	221	IPR016177	DNA-binding domain
SMART	SM00380	4.9E-30	165	227	IPR001471	AP2/ERF domain
CDD	cd00018	2.49E-11	165	220	No hit	No description
PROSITE profile	PS51032	17.332	165	221	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	1.7E-16	165	221	IPR001471	AP2/ERF domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009658	Biological Process	chloroplast organization
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 389 aa Download sequence Send to blast
FFFPLLEPSL SLSPPLCHLS SLSHLFSLIS PEQENTNTIR RRLNKTMLDL SLGMFSNYGE 60 DQDRKVPLVS AAGEEESNIS SSSSSSKDSA AGKAFITFGI IKRDDDVVPP PPSKETGDLF 120 PVTDARRNIE FSLDDGHWLR LSSLQRNKQQ AVKKSRRGPR SRSSQYRGVT FYRRTGRWES 180 HIWDCGKQVY LGGFDTAYAA ARAYDRAAIK FRGLDADINF VVEDYKQDLD KMKNLNKVEF 240 VQTLRRESAS FGRGSSKYKG LTLQKCTQFK THQDQIHLLQ NRGWDAAAIK YSEFGKGGVM 300 KSGVHIKGNA HSDLELSLGL SSSSQNTKLT TRDYYKGINQ STMGLFTKQS SIYLPVTTMT 360 PLKTVAASSG FPFITMTTSS SSMSTSFDP

Sequence ? help Back to Top

Protein Sequence Length: 389 aa Download sequence Send to blast

FFFPLLEPSL SLSPPLCHLS SLSHLFSLIS PEQENTNTIR RRLNKTMLDL SLGMFSNYGE  60
DQDRKVPLVS AAGEEESNIS SSSSSSKDSA AGKAFITFGI IKRDDDVVPP PPSKETGDLF  120
PVTDARRNIE FSLDDGHWLR LSSLQRNKQQ AVKKSRRGPR SRSSQYRGVT FYRRTGRWES  180
HIWDCGKQVY LGGFDTAYAA ARAYDRAAIK FRGLDADINF VVEDYKQDLD KMKNLNKVEF  240
VQTLRRESAS FGRGSSKYKG LTLQKCTQFK THQDQIHLLQ NRGWDAAAIK YSEFGKGGVM  300
KSGVHIKGNA HSDLELSLGL SSSSQNTKLT TRDYYKGINQ STMGLFTKQS SIYLPVTTMT  360
PLKTVAASSG FPFITMTTSS SSMSTSFDP

Functional Description ? help Back to Top
Source	Description
UniProt	Probably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). Repressor of flowering. {ECO:0000250, ECO:0000269\|PubMed:14573523}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00075	ChIP-chip	Transfer from AT3G54990	Download

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by miR172 after photoperiod changement. {ECO:0000269\|PubMed:14573523}.

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_018491037.1	0.0	PREDICTED: AP2-like ethylene-responsive transcription factor SMZ
Swissprot	Q6PV68	1e-158	SMZ_ARATH; AP2-like ethylene-responsive transcription factor SMZ
TrEMBL	A0A1J3F3Y1	0.0	A0A1J3F3Y1_NOCCA; AP2-like ethylene-responsive transcription factor SMZ (Fragment)
STRING	XP_010427236.1	1e-180	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM10858	18	32

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G54990.1	1e-150	AP2 family protein

Publications ? help Back to Top
Gras DE, et al. SMZ/SNZ and gibberellin signaling are required for nitrate-elicited delay of flowering time in Arabidopsis thaliana. J. Exp. Bot., 2018. 69(3): p. 619-631 [PMID:29309650]