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

676785970

Organism

Sisymbrium irio

Taxonomic ID

3730

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Sisymbrieae; Sisymbrium

Family

ERF

Protein Properties

Length: 358aa MW: 39630 Da PI: 4.8642

Description

ERF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
676785970	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	63.3	5.2e-20	123	172	2	55
AP2 2 gykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 +y+G+r+++ +g+W+AeIrdp+e +r++lg+f taeeAa+a++ a+++++g 676785970 123 QYRGIRQRP-WGKWAAEIRDPKE---GARIWLGTFKTAEEAARAYDVAARRIRG 172 69*****.******966...3***********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00018	3.98E-34	123	181	No hit	No description
SMART	SM00380	7.5E-40	123	186	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	2.68E-22	123	181	IPR016177	DNA-binding domain
PROSITE profile	PS51032	24.513	123	180	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	5.9E-33	123	182	IPR001471	AP2/ERF domain
Pfam	PF00847	1.1E-12	124	172	IPR001471	AP2/ERF domain
PRINTS	PR00367	1.1E-11	124	135	IPR001471	AP2/ERF domain
PRINTS	PR00367	1.1E-11	146	162	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:0070483	Biological Process	detection of hypoxia
GO:0005634	Cellular Component	nucleus
GO:0005886	Cellular Component	plasma membrane
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: 358 aa Download sequence Send to blast
MCGGAIISDF IPPPRSRRVT SEFIWPDLKK NVKGLKKSLK KRSSFFDLDD EFEADFQGFK 60 DDDSSIDCDD GFDVGDVFAD AKPFVFTATP KPVVSAATAG FGKKVGDCHG EAEKSAKRKR 120 KNQYRGIRQR PWGKWAAEIR DPKEGARIWL GTFKTAEEAA RAYDVAARRI RGSKAKVNFP 180 EENPNLSQKR TVKSSPQKPV ANPIPNPALV QNFDNSFDNM CFMEEKQQLN NNNNNQFGGL 240 TNSIDAGCGG NGYNQYFSSD QGSNSFGCSE FGWSDQAPIT PEISSAFINN NNSALFVEEA 300 NPAKKLKSMD FETPFNNTEW DPSLDFLNGD AVVTQDNAAN PMDLWSIDEI DSMIGGVF

Sequence ? help Back to Top

Protein Sequence Length: 358 aa Download sequence Send to blast

MCGGAIISDF IPPPRSRRVT SEFIWPDLKK NVKGLKKSLK KRSSFFDLDD EFEADFQGFK  60
DDDSSIDCDD GFDVGDVFAD AKPFVFTATP KPVVSAATAG FGKKVGDCHG EAEKSAKRKR  120
KNQYRGIRQR PWGKWAAEIR DPKEGARIWL GTFKTAEEAA RAYDVAARRI RGSKAKVNFP  180
EENPNLSQKR TVKSSPQKPV ANPIPNPALV QNFDNSFDNM CFMEEKQQLN NNNNNQFGGL  240
TNSIDAGCGG NGYNQYFSSD QGSNSFGCSE FGWSDQAPIT PEISSAFINN NNSALFVEEA  300
NPAKKLKSMD FETPFNNTEW DPSLDFLNGD AVVTQDNAAN PMDLWSIDEI DSMIGGVF

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1gcc_A	2e-23	123	180	2	60	ETHYLENE RESPONSIVE ELEMENT BINDING FACTOR 1
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	28	41	KKNVKGLKKSLKKR

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor involved in the activation of hypoxic gene expression and in ethylene response. Partially redundant with RAP2-2. Acts as a downstream regulator in the ethylene signaling pathway. {ECO:0000269\|PubMed:22020282, ECO:0000269\|PubMed:22530619}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00204	DAP	Transfer from AT1G53910	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	676785970

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Up-regulated by hypoxia but not by ethylene. {ECO:0000269\|PubMed:22020282}.

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK353211	0.0	AK353211.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-22-M23.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001077718.1	0.0	related to AP2 12
Swissprot	Q9SSA8	0.0	RA212_ARATH; Ethylene-responsive transcription factor RAP2-12
TrEMBL	A0A1J3DI34	0.0	A0A1J3DI34_NOCCA; Ethylene-responsive transcription factor RAP2-12
STRING	AT1G53910.1	0.0	(Arabidopsis thaliana)
STRING	XP_006392736.1	0.0	(Eutrema salsugineum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM10	28	1650

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G53910.3	1e-153	related to AP2 12

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] Kosmacz M, et al. The stability and nuclear localization of the transcription factor RAP2.12 are dynamically regulated by oxygen concentration. Plant Cell Environ., 2015. 38(6): p. 1094-103 [PMID:25438831] Bui LT,Giuntoli B,Kosmacz M,Parlanti S,Licausi F Constitutively expressed ERF-VII transcription factors redundantly activate the core anaerobic response in Arabidopsis thaliana. Plant Sci., 2015. 236: p. 37-43 [PMID:26025519] Gasch P, et al. Redundant ERF-VII Transcription Factors Bind to an Evolutionarily Conserved cis-Motif to Regulate Hypoxia-Responsive Gene Expression in Arabidopsis. Plant Cell, 2016. 28(1): p. 160-80 [PMID:26668304] Gonzali S, et al. Universal stress protein HRU1 mediates ROS homeostasis under anoxia. Nat Plants, 2015. 1: p. 15151 [PMID:27251529] Paul MV, et al. Oxygen Sensing via the Ethylene Response Transcription Factor RAP2.12 Affects Plant Metabolism and Performance under Both Normoxia and Hypoxia. Plant Physiol., 2016. 172(1): p. 141-53 [PMID:27372243] Shahzad Z, et al. A Potassium-Dependent Oxygen Sensing Pathway Regulates Plant Root Hydraulics. Cell, 2016. 167(1): p. 87-98.e14 [PMID:27641502] Yao Y, et al. ETHYLENE RESPONSE FACTOR 74 (ERF74) plays an essential role in controlling a respiratory burst oxidase homolog D (RbohD)-dependent mechanism in response to different stresses in Arabidopsis. New Phytol., 2017. 213(4): p. 1667-1681 [PMID:28164334] Giuntoli B,Licausi F,van Veen H,Perata P Functional Balancing of the Hypoxia Regulators RAP2.12 and HRA1 Takes Place in vivo in Arabidopsis thaliana Plants. Front Plant Sci, 2017. 8: p. 591 [PMID:28487707] Yao Y,Chen X,Wu AM ERF-VII members exhibit synergistic and separate roles in Arabidopsis. Plant Signal Behav, 2017. 12(6): p. e1329073 [PMID:28537474] Eysholdt-Derzsó E,Sauter M Root Bending Is Antagonistically Affected by Hypoxia and ERF-Mediated Transcription via Auxin Signaling. Plant Physiol., 2017. 175(1): p. 412-423 [PMID:28698356] Giuntoli B, et al. Age-dependent regulation of ERF-VII transcription factor activity in Arabidopsis thaliana. Plant Cell Environ., 2017. 40(10): p. 2333-2346 [PMID:28741696]