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

GSVIVT01030085001

Organism

Vitis vinifera

Taxonomic ID

29760

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; rosids incertae sedis; Vitales; Vitaceae; Vitis

Family

NF-YB

Protein Properties

Length: 483aa MW: 51639.4 Da PI: 6.3772

Description

NF-YB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSVIVT01030085001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YB	55.7	1.2e-17	23	60	2	39
NF-YB 2 reqdrflPianvsrimkkvlPanakiskdaketvqecv 39 reqdrflPianvsrimkk+lPanakiskdaketvq+ GSVIVT01030085001 23 REQDRFLPIANVSRIMKKALPANAKISKDAKETVQDSG 60 89*********************************975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	4.19E-10	13	58	IPR009072	Histone-fold
Gene3D	G3DSA:1.10.20.10	3.1E-15	18	59	IPR009072	Histone-fold
Pfam	PF00808	2.0E-8	28	58	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
PROSITE profile	PS50213	10.268	139	286	IPR000782	FAS1 domain
Gene3D	G3DSA:2.30.180.10	1.5E-8	141	218	IPR000782	FAS1 domain
SuperFamily	SSF82153	1.57E-16	145	287	IPR000782	FAS1 domain
Pfam	PF02469	1.2E-4	150	218	IPR000782	FAS1 domain
PROSITE profile	PS50213	13.274	279	418	IPR000782	FAS1 domain
Gene3D	G3DSA:2.30.180.10	3.9E-11	282	420	IPR000782	FAS1 domain
SuperFamily	SSF82153	9.42E-18	285	420	IPR000782	FAS1 domain
Pfam	PF02469	4.8E-15	292	420	IPR000782	FAS1 domain
SMART	SM00554	1.1E-16	317	421	IPR000782	FAS1 domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005774	Cellular Component	vacuolar membrane
GO:0046658	Cellular Component	anchored component of plasma membrane
GO:0046982	Molecular Function	protein heterodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 483 aa Download sequence Send to blast
MADSDNDSGG HNNSNANSEL SAREQDRFLP IANVSRIMKK ALPANAKISK DAKETVQDSG 60 SSGGFNGGGM YGGMMMMGHH QGQAYGSGSA PLPLNSLLHS SHHHLPIFIL TGKMQHAPVF 120 TRLLTLSVCL LFLSCATHAH NITHILAKYP EFSTFSHYLT VTHLAGEINR RQTITVLAVS 180 NAGMADLLSK HLSVYVIKNV LSLHVLVDYF GARKLHQITD GTASSATLFQ STGSAPGTAG 240 FVNITDLKHG KVGFGAQDSG HLNAYFVKSV VEIPYNISVL EISQILTSAQ GCKAFGDLLE 300 ASGAIKTFEE NADGGLTVFC PSDDVIKGFM PKYKNLTAAG KVSLLLYHGI PIYQSMQMLK 360 SSNGVTNTLA TDGAKKYDFT VQTEGEDITL ETKVVTARVT GTVLDQEPVV LYKINKVLLP 420 RELFEGTVED DEAESPKAAS PKSDDSEDST ADQDDENSGG RFDGGRWASV LLTVFAGAFV 480 LF*

Sequence ? help Back to Top

Protein Sequence Length: 483 aa Download sequence Send to blast

MADSDNDSGG HNNSNANSEL SAREQDRFLP IANVSRIMKK ALPANAKISK DAKETVQDSG  60
SSGGFNGGGM YGGMMMMGHH QGQAYGSGSA PLPLNSLLHS SHHHLPIFIL TGKMQHAPVF  120
TRLLTLSVCL LFLSCATHAH NITHILAKYP EFSTFSHYLT VTHLAGEINR RQTITVLAVS  180
NAGMADLLSK HLSVYVIKNV LSLHVLVDYF GARKLHQITD GTASSATLFQ STGSAPGTAG  240
FVNITDLKHG KVGFGAQDSG HLNAYFVKSV VEIPYNISVL EISQILTSAQ GCKAFGDLLE  300
ASGAIKTFEE NADGGLTVFC PSDDVIKGFM PKYKNLTAAG KVSLLLYHGI PIYQSMQMLK  360
SSNGVTNTLA TDGAKKYDFT VQTEGEDITL ETKVVTARVT GTVLDQEPVV LYKINKVLLP  420
RELFEGTVED DEAESPKAAS PKSDDSEDST ADQDDENSGG RFDGGRWASV LLTVFAGAFV  480
LF*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Vvi.17266	0.0	bud\| cell culture\| fruit\| root

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed mainly in flowers and to a lesser extent in leaves and roots. {ECO:0000269\|PubMed:14645732}.

Functional Description ? help Back to Top
Source	Description
UniProt	May be a cell surface adhesion protein.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by abscisic acid (ABA). {ECO:0000269\|PubMed:14645732}.

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	FQ392691	0.0	FQ392691.1 Vitis vinifera clone SS0AFA4YK03.
GenBank	FQ392801	0.0	FQ392801.1 Vitis vinifera clone SS0AFA4YD08.
GenBank	FQ393013	0.0	FQ393013.1 Vitis vinifera clone SS0AFA3YB08.
GenBank	FQ394671	0.0	FQ394671.1 Vitis vinifera clone SS0AFA1YH15.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002267946.1	0.0	PREDICTED: fasciclin-like arabinogalactan protein 2
Swissprot	Q9SU13	1e-140	FLA2_ARATH; Fasciclin-like arabinogalactan protein 2
TrEMBL	F6HHQ0	0.0	F6HHQ0_VITVI; Uncharacterized protein
STRING	VIT_12s0057g01020.t01	0.0	(Vitis vinifera)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G14540.1	1e-17	nuclear factor Y, subunit B3

Link Out ? help Back to Top
Phytozome	GSVIVT01030085001

Publications ? help Back to Top
Gaspar Y,Johnson KL,McKenna JA,Bacic A,Schultz CJ The complex structures of arabinogalactan-proteins and the journey towards understanding function. Plant Mol. Biol., 2001. 47(1-2): p. 161-76 [PMID:11554470] Schultz CJ, et al. Using genomic resources to guide research directions. The arabinogalactan protein gene family as a test case. Plant Physiol., 2002. 129(4): p. 1448-63 [PMID:12177459] Elortza F, et al. Proteomic analysis of glycosylphosphatidylinositol-anchored membrane proteins. Mol. Cell Proteomics, 2003. 2(12): p. 1261-70 [PMID:14517339] Suh MC, et al. Comparative analysis of expressed sequence tags from Sesamum indicum and Arabidopsis thaliana developing seeds. Plant Mol. Biol., 2003. 52(6): p. 1107-23 [PMID:14682612] Armengaud P,Breitling R,Amtmann A The potassium-dependent transcriptome of Arabidopsis reveals a prominent role of jasmonic acid in nutrient signaling. Plant Physiol., 2004. 136(1): p. 2556-76 [PMID:15347784] Sibout R, et al. CINNAMYL ALCOHOL DEHYDROGENASE-C and -D are the primary genes involved in lignin biosynthesis in the floral stem of Arabidopsis. Plant Cell, 2005. 17(7): p. 2059-76 [PMID:15937231] Lee KJ, et al. Arabinogalactan proteins are required for apical cell extension in the moss Physcomitrella patens. Plant Cell, 2005. 17(11): p. 3051-65 [PMID:16199618] Ito S,Suzuki Y,Miyamoto K,Ueda J,Yamaguchi I AtFLA11, a fasciclin-like arabinogalactan-protein, specifically localized in sclerenchyma cells. Biosci. Biotechnol. Biochem., 2005. 69(10): p. 1963-9 [PMID:16244449] Marmagne A, et al. A high content in lipid-modified peripheral proteins and integral receptor kinases features in the arabidopsis plasma membrane proteome. Mol. Cell Proteomics, 2007. 6(11): p. 1980-96 [PMID:17644812] Chen X,Lin WH,Wang Y,Luan S,Xue HW An inositol polyphosphate 5-phosphatase functions in PHOTOTROPIN1 signaling in Arabidopis by altering cytosolic Ca2+. Plant Cell, 2008. 20(2): p. 353-66 [PMID:18252844] Titapiwatanakun B, et al. ABCB19/PGP19 stabilises PIN1 in membrane microdomains in Arabidopsis. Plant J., 2009. 57(1): p. 27-44 [PMID:18774968] MacMillan CP,Mansfield SD,Stachurski ZH,Evans R,Southerton SG Fasciclin-like arabinogalactan proteins: specialization for stem biomechanics and cell wall architecture in Arabidopsis and Eucalyptus. Plant J., 2010. 62(4): p. 689-703 [PMID:20202165]