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

GSBRNA2T00043711001

Common Name

GSBRNA2T00043711001

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

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

Family

ERF

Protein Properties

Length: 653aa MW: 71801.1 Da PI: 9.486

Description

ERF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00043711001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	59.4	8.9e-19	449	499	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 ++y+GVr ++ +gr++AeIrdp + + r++lg+f++a eAa+a+++a+++l+g GSBRNA2T00043711001 449 PRYRGVRKRP-WGRFAAEIRDPLK---KSRVWLGTFDSAVEAARAYDQAARNLRG 499 68******.******743...5***********************99 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF02470	8.9E-14	162	237	IPR003399	Mce/MlaD
CDD	cd00018	1.83E-30	449	509	No hit	No description
Pfam	PF00847	1.8E-12	449	499	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	6.54E-21	450	509	IPR016177	DNA-binding domain
SMART	SM00380	4.4E-38	450	513	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	3.7E-31	450	507	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	22.945	450	507	IPR001471	AP2/ERF domain
PRINTS	PR00367	3.1E-9	451	462	IPR001471	AP2/ERF domain
PRINTS	PR00367	3.1E-9	473	489	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:0005634	Cellular Component	nucleus
GO:0016021	Cellular Component	integral component of 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: 653 aa Download sequence Send to blast
MGFSVCVYLP SSSKSLKPFS DSRQQFRSEE LEHSFWKMLG NPLIQVPSSL MPSSSMMACP 60 RVSPNGLPYL PPKPRTRYLV VRATSNSHGQ PSSDDGKSPL TVVLDVPRNI WRQTLKPLSD 120 FGFGKRSVWE GGVGLFIVSG ATVLALSWAW LRGFQMRAKF RKYQTVFELS QASGICTGTP 180 VRIRGVTVGT VIRVNPSLKN IEAVAEIEDD KIIIPKNSLV EVNQSGLLME TMIDITPRNP 240 IPEPSVGPLH PECGREGLIV CDRQKIKGEQ GVSLDALVGI FTRIGREVEE IGVVNAYTLA 300 ERAASVIEEA KPLLRKIQAM AQDAQPLLSE FRDSGLLKEV ESLTRSLTQA SDDMRKVHSS 360 IMTPENTELI QKSIYTLVYT LKNVESISSD ILGFTGDEAT RKNLKLLIKS LNLFSTTLLL 420 VSPTMRKGRG SSAVPPALPV TANGSVKEPR YRGVRKRPWG RFAAEIRDPL KKSRVWLGTF 480 DSAVEAARAY DQAARNLRGP KAKTNFPIDC SPSSPLQPLY HQNHQNLRSA NQSQIDPFMD 540 HRLYGGGGEQ QIISRPASSS MSSTVKSFSG QRPSSSVAKP LPAAKRYPRT PPVAPEDCHS 600 DCDSSSSVID DGDDIVSSST RRKPPFQFDL NFPPLDGVDL FDDDLHCTDL RL*

Sequence ? help Back to Top

Protein Sequence Length: 653 aa Download sequence Send to blast

MGFSVCVYLP SSSKSLKPFS DSRQQFRSEE LEHSFWKMLG NPLIQVPSSL MPSSSMMACP  60
RVSPNGLPYL PPKPRTRYLV VRATSNSHGQ PSSDDGKSPL TVVLDVPRNI WRQTLKPLSD  120
FGFGKRSVWE GGVGLFIVSG ATVLALSWAW LRGFQMRAKF RKYQTVFELS QASGICTGTP  180
VRIRGVTVGT VIRVNPSLKN IEAVAEIEDD KIIIPKNSLV EVNQSGLLME TMIDITPRNP  240
IPEPSVGPLH PECGREGLIV CDRQKIKGEQ GVSLDALVGI FTRIGREVEE IGVVNAYTLA  300
ERAASVIEEA KPLLRKIQAM AQDAQPLLSE FRDSGLLKEV ESLTRSLTQA SDDMRKVHSS  360
IMTPENTELI QKSIYTLVYT LKNVESISSD ILGFTGDEAT RKNLKLLIKS LNLFSTTLLL  420
VSPTMRKGRG SSAVPPALPV TANGSVKEPR YRGVRKRPWG RFAAEIRDPL KKSRVWLGTF  480
DSAVEAARAY DQAARNLRGP KAKTNFPIDC SPSSPLQPLY HQNHQNLRSA NQSQIDPFMD  540
HRLYGGGGEQ QIISRPASSS MSSTVKSFSG QRPSSSVAKP LPAAKRYPRT PPVAPEDCHS  600
DCDSSSSVID DGDDIVSSST RRKPPFQFDL NFPPLDGVDL FDDDLHCTDL RL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5wx9_A	1e-20	450	507	14	72	Ethylene-responsive transcription factor ERF096
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.8519	0.0	seed\| vegetative meristem

Functional Description ? help Back to Top
Source	Description
UniProt	Component of a phosphatidic acid/lipid transport complex in the chloroplast envelope. Specifically binds phosphatidic acid (PA). Involved in lipid transfer from the endoplasmic reticulum (ER) to plastids, and necessary for thylakoids formation. {ECO:0000269\|PubMed:16818883}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00043711001

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AY048230	0.0	AY048230.1 Arabidopsis thaliana AT3g20320/MQC12_7 mRNA, complete cds.
GenBank	AY085722	0.0	AY085722.1 Arabidopsis thaliana clone 17362 mRNA, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013728662.1	0.0	protein TRIGALACTOSYLDIACYLGLYCEROL 2, chloroplastic-like
Swissprot	Q9LTR2	0.0	TGD2_ARATH; Protein TRIGALACTOSYLDIACYLGLYCEROL 2, chloroplastic
TrEMBL	A0A078GZ06	0.0	A0A078GZ06_BRANA; BnaC05g31720D protein
STRING	Bo5g109800.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM10067	2	3

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G20310.1	2e-98	ethylene response factor 7

Publications ? help Back to Top
Krogh A,Larsson B,von Heijne G,Sonnhammer EL Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J. Mol. Biol., 2001. 305(3): p. 567-80 [PMID:11152613] Xu C,Fan J,Riekhof W,Froehlich JE,Benning C A permease-like protein involved in ER to thylakoid lipid transfer in Arabidopsis. EMBO J., 2003. 22(10): p. 2370-9 [PMID:12743031] Ferro M, et al. Proteomics of the chloroplast envelope membranes from Arabidopsis thaliana. Mol. Cell Proteomics, 2003. 2(5): p. 325-45 [PMID:12766230] Garcia O,Bouige P,Forestier C,Dassa E Inventory and comparative analysis of rice and Arabidopsis ATP-binding cassette (ABC) systems. J. Mol. Biol., 2004. 343(1): p. 249-65 [PMID:15381434] Awai K,Xu C,Tamot B,Benning C A phosphatidic acid-binding protein of the chloroplast inner envelope membrane involved in lipid trafficking. Proc. Natl. Acad. Sci. U.S.A., 2006. 103(28): p. 10817-22 [PMID:16818883] Lu B,Xu C,Awai K,Jones AD,Benning C A small ATPase protein of Arabidopsis, TGD3, involved in chloroplast lipid import. J. Biol. Chem., 2007. 282(49): p. 35945-53 [PMID:17938172] Verrier PJ, et al. Plant ABC proteins--a unified nomenclature and updated inventory. Trends Plant Sci., 2008. 13(4): p. 151-9 [PMID:18299247] Lu B,Benning C A 25-amino acid sequence of the Arabidopsis TGD2 protein is sufficient for specific binding of phosphatidic acid. J. Biol. Chem., 2009. 284(26): p. 17420-7 [PMID:19416982] Song W,Maeda H,DellaPenna D Mutations of the ER to plastid lipid transporters TGD1, 2, 3 and 4 and the ER oleate desaturase FAD2 suppress the low temperature-induced phenotype of Arabidopsis tocopherol-deficient mutant vte2. Plant J., 2010. 62(6): p. 1004-18 [PMID:20345604] Bryant N,Lloyd J,Sweeney C,Myouga F,Meinke D Identification of nuclear genes encoding chloroplast-localized proteins required for embryo development in Arabidopsis. Plant Physiol., 2011. 155(4): p. 1678-89 [PMID:21139083] Roston R,Gao J,Xu C,Benning C Arabidopsis chloroplast lipid transport protein TGD2 disrupts membranes and is part of a large complex. Plant J., 2011. 66(5): p. 759-69 [PMID:21309871] Roston RL,Gao J,Murcha MW,Whelan J,Benning C TGD1, -2, and -3 proteins involved in lipid trafficking form ATP-binding cassette (ABC) transporter with multiple substrate-binding proteins. J. Biol. Chem., 2012. 287(25): p. 21406-15 [PMID:22544736] Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] Fan J,Zhai Z,Yan C,Xu C Arabidopsis TRIGALACTOSYLDIACYLGLYCEROL5 Interacts with TGD1, TGD2, and TGD4 to Facilitate Lipid Transfer from the Endoplasmic Reticulum to Plastids. Plant Cell, 2015. 27(10): p. 2941-55 [PMID:26410300] Putta P, et al. Phosphatidic acid binding proteins display differential binding as a function of membrane curvature stress and chemical properties. Biochim. Biophys. Acta, 2016. 1858(11): p. 2709-2716 [PMID:27480805]