PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID RrC844_p6
Organism
Raphanus raphanistrum
Taxonomic ID
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: 322aa    MW: 36000.7 Da    PI: 4.9422
Description ERF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC844_p6genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP266.64.9e-21107157155
        AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                s+y+G+r+++ +g+W+AeIrdp+e     r++lg+f taeeAa+a++aa+++++g
  RrC844_p6 107 SQYRGIRQRP-WGKWAAEIRDPRE---GSRVWLGTFKTAEEAARAYDAAARRIRG 157
                78********.**********965...3*************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF541711.37E-22107166IPR016177DNA-binding domain
PfamPF008471.5E-13107157IPR001471AP2/ERF domain
CDDcd000188.79E-18107166No hitNo description
Gene3DG3DSA:3.30.730.102.6E-33108167IPR001471AP2/ERF domain
SMARTSM003803.9E-38108171IPR001471AP2/ERF domain
PROSITE profilePS5103224.408108165IPR001471AP2/ERF domain
PRINTSPR003677.6E-12109120IPR001471AP2/ERF domain
PRINTSPR003677.6E-12131147IPR001471AP2/ERF domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0070483Biological Processdetection of hypoxia
GO:0005634Cellular Componentnucleus
GO:0005886Cellular Componentplasma membrane
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 322 aa     Download sequence    Send to blast
MCGGAIISDF IPPPRSRRVT SEFLWPDLKK NAKKSSRKRS SFFDLDDEFE ADFQGFNDDS  60
SIDCDDAKPF VFAGARKPAA ATAADSAFCK KVADGEGERS AKRKRKSQYR GIRQRPWGKW  120
AAEIRDPREG SRVWLGTFKT AEEAARAYDA AARRIRGSKA KVNFPEENPL AKKVAKPNPN  180
PTLVQNVDNS FDNMCFMEEK QQVNSSNNNN NQFGNGYHQL FSSDQGSNSF GCSEFGWNDQ  240
APITPEISSA FINNNNSALF VEEADPAKKL KAMDFETPYN NTEWDSSLDF FNEDAVATQD  300
NGANHMELWS IDEIDSMIGG VF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
2gcc_A7e-22108165563ATERF1
3gcc_A7e-22108165563ATERF1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription 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
MP00204DAPTransfer from AT1G53910Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by hypoxia but not by ethylene. {ECO:0000269|PubMed:22020282}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3532111e-100AK353211.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-22-M23.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018451660.10.0PREDICTED: ethylene-responsive transcription factor RAP2-12 isoform X1
SwissprotQ9SSA81e-159RA212_ARATH; Ethylene-responsive transcription factor RAP2-12
TrEMBLA0A397Y7U01e-180A0A397Y7U0_BRACM; Uncharacterized protein
STRINGBo3g184310.11e-179(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM10281650
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G53910.31e-125related to AP2 12
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. 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]
  3. 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]
  4. 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]
  5. Gonzali S, et al.
    Universal stress protein HRU1 mediates ROS homeostasis under anoxia.
    Nat Plants, 2015. 1: p. 15151
    [PMID:27251529]
  6. 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]
  7. Shahzad Z, et al.
    A Potassium-Dependent Oxygen Sensing Pathway Regulates Plant Root Hydraulics.
    Cell, 2016. 167(1): p. 87-98.e14
    [PMID:27641502]
  8. 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]
  9. 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]
  10. 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]
  11. 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]
  12. 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]