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

GSBRNA2T00029543001

Common Name

GSBRNA2T00029543001

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: 660aa MW: 72512 Da PI: 9.2028

Description

ERF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00029543001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	59.3	9e-19	459	509	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 ++y+GVr ++ +gr++AeIrdp + + r++lg+f++a eAa+a+++a+++l+g GSBRNA2T00029543001 459 PRYRGVRKRP-WGRFAAEIRDPLK---KSRVWLGTFDSAVEAARAYDQAARNLRG 509 68******.******743...5***********************99 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF02470	9.3E-14	172	247	IPR003399	Mce/MlaD
CDD	cd00018	1.90E-30	459	519	No hit	No description
Pfam	PF00847	1.9E-12	459	509	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	3.7E-31	460	517	IPR001471	AP2/ERF domain
SMART	SM00380	4.4E-38	460	523	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	6.54E-21	460	519	IPR016177	DNA-binding domain
PROSITE profile	PS51032	22.945	460	517	IPR001471	AP2/ERF domain
PRINTS	PR00367	3.2E-9	461	472	IPR001471	AP2/ERF domain
PRINTS	PR00367	3.2E-9	483	499	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:0032365	Biological Process	intracellular lipid transport
GO:0005634	Cellular Component	nucleus
GO:0009706	Cellular Component	chloroplast inner membrane
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
GO:0005319	Molecular Function	lipid transporter activity
GO:0005543	Molecular Function	phospholipid binding

Sequence ? help Back to Top
Protein Sequence Length: 660 aa Download sequence Send to blast
MTKLPLCKNN TWDFPSVCNL PSNNSLKPFS DSRQQFRSEE LELSFWKMIG NPVIQVPSSL 60 MPSSSMMACP RVSPSGLPYL PPKPRTRHLV VRAASNSHGQ PSSDEGKSPL TVVLDVPRNI 120 WRQTLKPLSD FGFGKRSVWE GGVGLFIVSG ATLLALSWAW LRGFQMRAKF KKYQTVFELS 180 QASGICTGTP VRIRGVTVGT VIRVNPSLKN IEAVAEIEDD KIIIPKNSLV EVNQSGLLME 240 TMIDITPRNP IPEPSVGPLH PECGREGLIV CDRQKIKGEQ GVSLDALVGI FTRIGREVEE 300 IGVVNAYTLA ERAASVIEEA KPLLRKIQAM AEDAQPLLSE FRDSGLLKEV ECLTRSLTQA 360 SDDMRKVHSS IMTPENTELI QKSIYTLVYT LKNVESISSD ILGFTGDEAT RKNLKLLIKS 420 LNLFSTTLLL VSPTMRKGRV SSAVAPALPV TANGSAKEPR YRGVRKRPWG RFAAEIRDPL 480 KKSRVWLGTF DSAVEAARAY DQAARNLRGP KAKTNFPIDC SPSSPLQPLY HQNLRSANQS 540 QIDPFMDHRL YGGGGEQQII SRPASSSMSS TVKSFSGQRP SSSVAKPLAA AKRYPRTPPV 600 APEDCHSDCD SSSSVIDDGD DIVSSSTRRK PPFQFDLNFP PLDGVDLFDD DLHCTDLRL*

Sequence ? help Back to Top

Protein Sequence Length: 660 aa Download sequence Send to blast

MTKLPLCKNN TWDFPSVCNL PSNNSLKPFS DSRQQFRSEE LELSFWKMIG NPVIQVPSSL  60
MPSSSMMACP RVSPSGLPYL PPKPRTRHLV VRAASNSHGQ PSSDEGKSPL TVVLDVPRNI  120
WRQTLKPLSD FGFGKRSVWE GGVGLFIVSG ATLLALSWAW LRGFQMRAKF KKYQTVFELS  180
QASGICTGTP VRIRGVTVGT VIRVNPSLKN IEAVAEIEDD KIIIPKNSLV EVNQSGLLME  240
TMIDITPRNP IPEPSVGPLH PECGREGLIV CDRQKIKGEQ GVSLDALVGI FTRIGREVEE  300
IGVVNAYTLA ERAASVIEEA KPLLRKIQAM AEDAQPLLSE FRDSGLLKEV ECLTRSLTQA  360
SDDMRKVHSS IMTPENTELI QKSIYTLVYT LKNVESISSD ILGFTGDEAT RKNLKLLIKS  420
LNLFSTTLLL VSPTMRKGRV SSAVAPALPV TANGSAKEPR YRGVRKRPWG RFAAEIRDPL  480
KKSRVWLGTF DSAVEAARAY DQAARNLRGP KAKTNFPIDC SPSSPLQPLY HQNLRSANQS  540
QIDPFMDHRL YGGGGEQQII SRPASSSMSS TVKSFSGQRP SSSVAKPLAA AKRYPRTPPV  600
APEDCHSDCD SSSSVIDDGD DIVSSSTRRK PPFQFDLNFP PLDGVDLFDD DLHCTDLRL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5wx9_A	3e-21	456	517	10	72	Ethylene-responsive transcription factor ERF096
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.8487	0.0	microspore\| seed

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	GSBRNA2T00029543001

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_013652618.1	0.0	protein TRIGALACTOSYLDIACYLGLYCEROL 2, chloroplastic
Swissprot	Q9LTR2	0.0	TGD2_ARATH; Protein TRIGALACTOSYLDIACYLGLYCEROL 2, chloroplastic
TrEMBL	A0A078GG10	0.0	A0A078GG10_BRANA; BnaA05g18740D 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	1e-95	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]