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

Phvul.009G262200.1

Common Name

PHAVU_009G262200g

Organism

Phaseolus vulgaris

Taxonomic ID

3885

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Phaseolus

Family

ERF

Protein Properties

Length: 356aa MW: 39462.7 Da PI: 4.9396

Description

ERF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Phvul.009G262200.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	61.1	2.6e-19	97	146	2	55
AP2 2 gykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 +y+G+r+++ +g+W+AeIrdp++ r++lg+f taeeAa+a++a +++++g Phvul.009G262200.1 97 QYRGIRQRP-WGKWAAEIRDPRK---GVRVWLGTFNTAEEAARAYDAEARRIRG 146 69*****.******954...4**********************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00380	2.3E-37	97	160	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	2.7E-32	97	156	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	4.18E-22	97	155	IPR016177	DNA-binding domain
CDD	cd00018	3.91E-33	97	155	No hit	No description
PROSITE profile	PS51032	24.092	97	154	IPR001471	AP2/ERF domain
PRINTS	PR00367	1.0E-11	98	109	IPR001471	AP2/ERF domain
Pfam	PF00847	7.8E-12	98	146	IPR001471	AP2/ERF domain
PRINTS	PR00367	1.0E-11	120	136	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: 356 aa Download sequence Send to blast
MCGGAIISDF IPAAVTARSR RVTADYLWLD LKKRASQVIH SDDDFEADFR NFKDDSDSDA 60 DHQVKPFAFS ASSRPAVKSV AFNGGAEKSA KRKRKNQYRG IRQRPWGKWA AEIRDPRKGV 120 RVWLGTFNTA EEAARAYDAE ARRIRGKKAK VNFPEEASVK HSKVNQLGNQ KTVQPNVHMF 180 NAGNNQKDLC CPMDLVEQKP LVNQFADMGS FSSSGNGLRS LSSTDDVTLY FSSDQGSNSF 240 DYADLGWSEQ APKTPEISSM LSAPLDCDSH FVQEANHQTN SQDVVSMQDD SSKTLSEELV 300 DIESELKFFQ MPYLEGSWDD TSLESLLSCD TTQDGGNLMN LWSFDDIPSM AGGVF*

Sequence ? help Back to Top

Protein Sequence Length: 356 aa Download sequence Send to blast

MCGGAIISDF IPAAVTARSR RVTADYLWLD LKKRASQVIH SDDDFEADFR NFKDDSDSDA  60
DHQVKPFAFS ASSRPAVKSV AFNGGAEKSA KRKRKNQYRG IRQRPWGKWA AEIRDPRKGV  120
RVWLGTFNTA EEAARAYDAE ARRIRGKKAK VNFPEEASVK HSKVNQLGNQ KTVQPNVHMF  180
NAGNNQKDLC CPMDLVEQKP LVNQFADMGS FSSSGNGLRS LSSTDDVTLY FSSDQGSNSF  240
DYADLGWSEQ APKTPEISSM LSAPLDCDSH FVQEANHQTN SQDVVSMQDD SSKTLSEELV  300
DIESELKFFQ MPYLEGSWDD TSLESLLSCD TTQDGGNLMN LWSFDDIPSM AGGVF*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1gcc_A	1e-21	97	154	2	60	ETHYLENE RESPONSIVE ELEMENT BINDING FACTOR 1
Search in ModeBase

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	Phvul.009G262200.1

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	AP015035	0.0	AP015035.1 Vigna angularis var. angularis DNA, chromosome 2, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_007139068.1	0.0	hypothetical protein PHAVU_009G262200g
Swissprot	Q9SSA8	8e-71	RA212_ARATH; Ethylene-responsive transcription factor RAP2-12
TrEMBL	V7AZI1	0.0	V7AZI1_PHAVU; Uncharacterized protein
STRING	XP_007139068.1	0.0	(Phaseolus vulgaris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF4808	32	52

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G53910.3	1e-62	related to AP2 12

Link Out ? help Back to Top
Phytozome	Phvul.009G262200.1
Entrez Gene	18621371

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]