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

RrC27_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

ERF

Protein Properties

Length: 254aa MW: 28676.9 Da PI: 6.6374

Description

ERF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC27_p4	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	62.6	8.8e-20	91	140	2	55
AP2 2 gykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 +y+GVr+++ +g+W+AeIrdp + +r++lg+f tae Aa a+++a++k++g RrC27_p4 91 HYRGVRQRP-WGKWAAEIRDPQ----KaARVWLGTFETAEAAAIAYDEAALKFKG 140 7******.******93....36**********************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.730.10	7.2E-33	90	149	IPR001471	AP2/ERF domain
Pfam	PF00847	2.4E-13	91	140	IPR001471	AP2/ERF domain
SMART	SM00380	7.5E-37	91	154	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	4.77E-22	91	149	IPR016177	DNA-binding domain
PROSITE profile	PS51032	24.843	91	148	IPR001471	AP2/ERF domain
CDD	cd00018	2.84E-21	91	149	No hit	No description
PRINTS	PR00367	2.2E-11	92	103	IPR001471	AP2/ERF domain
PRINTS	PR00367	2.2E-11	114	130	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:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 254 aa Download sequence Send to blast
MANRRNYGKS PFGADESEKK EAENEENIFP FFSDQSQYDT RAMVSALTQV IGNQSNTHEN 60 TYRHHPDEYN QQDPSQHVTP KQDQGNSSKR HYRGVRQRPW GKWAAEIRDP QKAARVWLGT 120 FETAEAAAIA YDEAALKFKG SKAKLNFPER AQLASNNSST ITGLPNYYSS NQVYYSNPQT 180 IPYDNQYYYN QYLQQGGNSN DTLSNSMAGG ETGGLMYNHQ TLTTTNSSAS GGSSRQQEEY 240 TRFLHFGDSS YSGF

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1gcc_A	5e-26	90	150	1	62	ETHYLENE RESPONSIVE ELEMENT BINDING FACTOR 1
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Acts as a transcriptional activator of the phytosulfokine PSK5 peptide hormone. Binds to the GCC-box pathogenesis-related promoter element. Rate-limiting factor of quiescent center cell division active when surrounding stem cells are damaged. Is a proteolytic target of APC/C-FZR1 complex. {ECO:0000269\|PubMed:24158907}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Up-regulated by brassinosteroid, but not regulated by ethylene. {ECO:0000269\|PubMed:24158907}.

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_018469262.1	1e-154	PREDICTED: ethylene-responsive transcription factor ERF115-like
Swissprot	Q9LY29	1e-111	EF115_ARATH; Ethylene-responsive transcription factor ERF115
TrEMBL	A0A078FLX3	1e-125	A0A078FLX3_BRANA; BnaC02g01680D protein
TrEMBL	A0A3P6CVJ4	1e-125	A0A3P6CVJ4_BRAOL; Uncharacterized protein
STRING	Bo2g008570.1	1e-125	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5292	18	51

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G07310.1	1e-81	ERF family protein

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Zhang Y, et al. Shade avoidance 6 encodes an Arabidopsis flap endonuclease required for maintenance of genome integrity and development. Nucleic Acids Res., 2016. 44(3): p. 1271-84 [PMID:26721386] Zhang Y, et al. TOPOISOMERASE1α Acts through Two Distinct Mechanisms to Regulate Stele and Columella Stem Cell Maintenance. Plant Physiol., 2016. 171(1): p. 483-93 [PMID:26969721] Heyman J, et al. The heterodimeric transcription factor complex ERF115-PAT1 grants regeneration competence. Nat Plants, 2016. 2(11): p. 16165 [PMID:27797356] Kong X, et al. PHB3 Maintains Root Stem Cell Niche Identity through ROS-Responsive AP2/ERF Transcription Factors in Arabidopsis. Cell Rep, 2018. 22(5): p. 1350-1363 [PMID:29386120]