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

Sobic.002G054800.2.p

Common Name

Sb02g004590, SORBIDRAFT_02g004590

Organism

Sorghum bicolor

Taxonomic ID

4558

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum

Family

bZIP

Protein Properties

Length: 446aa MW: 48644.3 Da PI: 4.2556

Description

bZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.002G054800.2.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	bZIP_1	38.8	2e-12	239	293	5	59
CHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS bZIP_1 5 krerrkqkNReAArrsRqRKkaeieeLeekvkeLeaeNkaLkkeleelkkevakl 59 ++ +rk++NRe+ArrsR RK a ++ Le+ v++L+aeN+ L +l ++ ++ + Sobic.002G054800.2.p 239 RVRKRKESNRESARRSRYRKAAHLKDLEDQVEKLKAENSCLLRRLAAMNRKYNEA 293 5789*************************************99998887777655 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00338	4.6E-18	235	299	IPR004827	Basic-leucine zipper domain
Gene3D	G3DSA:1.20.5.170	1.9E-10	237	291	No hit	No description
PROSITE profile	PS50217	11.496	237	292	IPR004827	Basic-leucine zipper domain
SuperFamily	SSF57959	1.69E-9	239	290	No hit	No description
Pfam	PF00170	1.5E-9	239	290	IPR004827	Basic-leucine zipper domain
CDD	cd14702	2.52E-21	241	291	No hit	No description
PROSITE pattern	PS00036	0	242	257	IPR004827	Basic-leucine zipper domain
Pfam	PF12498	1.7E-16	306	418	IPR020983	Basic leucine-zipper, C-terminal

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 446 aa Download sequence Send to blast
MDHVFSMEEI LGPFWDLPLP PTPPEQQPLV VTGTDSVIVD GVVTHVGDGE GEQQPLVTGT 60 DSVVIDGVVT HGGDGEGGDM LDQIQNTTEW TFERLLEEEL LTNTTTVANS SCPALNVDPL 120 VEVDHGTMAP AEVSAVGDPM EYNAILKRKL DEDLMAFKMW RASTSGVNSE GSNNENGGGS 180 KNLVQNKLNS ADPTNNHAQN ADLRVRFATS SSSRDPSPSD EDMDGEVEIL GFKMPTEERV 240 RKRKESNRES ARRSRYRKAA HLKDLEDQVE KLKAENSCLL RRLAAMNRKY NEANVDNRVL 300 KADMETLRAK VKMGEDSLKR VIEMSSLTSI PIPELPSSSD VPVPIHEEIV NYFTTTPADD 360 ALADNSFMPM PEPLALQLQA EEPTINGALN ATEMNQIATH CAAGSQPSME LIQETMGAMM 420 PTSPGSTLQE SELLGPNETI NMHTY*

Sequence ? help Back to Top

Protein Sequence Length: 446 aa Download sequence Send to blast

MDHVFSMEEI LGPFWDLPLP PTPPEQQPLV VTGTDSVIVD GVVTHVGDGE GEQQPLVTGT  60
DSVVIDGVVT HGGDGEGGDM LDQIQNTTEW TFERLLEEEL LTNTTTVANS SCPALNVDPL  120
VEVDHGTMAP AEVSAVGDPM EYNAILKRKL DEDLMAFKMW RASTSGVNSE GSNNENGGGS  180
KNLVQNKLNS ADPTNNHAQN ADLRVRFATS SSSRDPSPSD EDMDGEVEIL GFKMPTEERV  240
RKRKESNRES ARRSRYRKAA HLKDLEDQVE KLKAENSCLL RRLAAMNRKY NEANVDNRVL  300
KADMETLRAK VKMGEDSLKR VIEMSSLTSI PIPELPSSSD VPVPIHEEIV NYFTTTPADD  360
ALADNSFMPM PEPLALQLQA EEPTINGALN ATEMNQIATH CAAGSQPSME LIQETMGAMM  420
PTSPGSTLQE SELLGPNETI NMHTY*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	233	262	MPTEERVRKRKESNRESARRSRYRKAAHLK

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Seed endosperm. {ECO:0000269\|PubMed:9207153}.

Functional Description ? help Back to Top
Source	Description
UniProt	Involved in the regulation of the endosperm-specific production of albumin b-32 and other zein proteins. It is a trans-acting transcriptional activator that binds to the consensus sequence 5'-GATGAYRTGR-3'. {ECO:0000269\|PubMed:2001677}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sobic.002G054800.2.p

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	EU390506	0.0	EU390506.1 Sorghum bicolor voucher IS13 opaque 2 protein (O2) gene, exon 6 and partial cds.
GenBank	EU390541	0.0	EU390541.1 Sorghum bicolor voucher IS7889 opaque 2 protein (O2) gene, exon 6 and partial cds.
GenBank	EU390546	0.0	EU390546.1 Sorghum bicolor voucher IS9527 opaque 2 protein (O2) gene, exon 6 and partial cds.
GenBank	EU390550	0.0	EU390550.1 Sorghum bicolor voucher IS10844 opaque 2 protein (O2) gene, exon 6 and partial cds.
GenBank	EU390558	0.0	EU390558.1 Sorghum bicolor voucher IS12447 opaque 2 protein (O2) gene, exon 6 and partial cds.
GenBank	EU390560	0.0	EU390560.1 Sorghum bicolor voucher IS12804 opaque 2 protein (O2) gene, exon 6 and partial cds.
GenBank	EU390562	0.0	EU390562.1 Sorghum bicolor voucher IS13113 opaque 2 protein (O2) gene, exon 6 and partial cds.
GenBank	EU390581	0.0	EU390581.1 Sorghum bicolor voucher IS16396 opaque 2 protein (O2) gene, exon 6 and partial cds.
GenBank	EU390583	0.0	EU390583.1 Sorghum bicolor voucher IS17658 opaque 2 protein (O2) gene, exon 6 and partial cds.
GenBank	EU390595	0.0	EU390595.1 Sorghum bicolor voucher IS20351 opaque 2 protein (O2) gene, exon 6 and partial cds.
GenBank	EU390626	0.0	EU390626.1 Sorghum bicolor voucher IS25077 opaque 2 protein (O2) gene, exon 6 and partial cds.
GenBank	EU390633	0.0	EU390633.1 Sorghum bicolor voucher IS26457 opaque 2 protein (O2) gene, exon 6 and partial cds.
GenBank	EU390634	0.0	EU390634.1 Sorghum bicolor voucher IS26554 opaque 2 protein (O2) gene, exon 6 and partial cds.
GenBank	EU390643	0.0	EU390643.1 Sorghum bicolor voucher IS28645 opaque 2 protein (O2) gene, exon 6 and partial cds.
GenBank	EU390683	0.0	EU390683.1 Sorghum bicolor voucher SSM546 opaque 2 protein (O2) gene, exon 6 and partial cds.
GenBank	EU390690	0.0	EU390690.1 Sorghum bicolor voucher SSM1049 opaque 2 protein (O2) gene, exon 6 and partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002459432.1	0.0	regulatory protein opaque-2 isoform X2
Swissprot	P12959	1e-132	OP2_MAIZE; Regulatory protein opaque-2
TrEMBL	C5XB30	0.0	C5XB30_SORBI; Uncharacterized protein
STRING	Sb02g004590.1	0.0	(Sorghum bicolor)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP3488	38	78
Representative plant	OGRP17275	2	3

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G24800.1	5e-21	basic leucine zipper 9

Link Out ? help Back to Top
Phytozome	Sobic.002G054800.2.p
Entrez Gene	8060745

Publications ? help Back to Top
de Souza Filho GA, et al. Identification of a DNA-binding factor that recognizes an alpha-coixin promoter and interacts with a Coix Opaque-2 like protein. Plant Mol. Biol., 1999. 39(1): p. 95-104 [PMID:10080712] Burnett RJ,Larkins BA Opaque2 modifiers alter transcription of the 27-kDa gamma-zein genes in maize. Mol. Gen. Genet., 1999. 261(6): p. 908-16 [PMID:10485281] Gaziola SA,Alessi ES,Guimaraes PE,Damerval C,Azevedo RA Quality protein maize: a biochemical study of enzymes involved in lysine metabolism. J. Agric. Food Chem., 1999. 47(3): p. 1268-75 [PMID:10552448] Ciceri P,Locatelli F,Genga A,Viotti A,Schmidt RJ The activity of the maize Opaque2 transcriptional activator is regulated diurnally. Plant Physiol., 1999. 121(4): p. 1321-8 [PMID:10594119] Ciceri P, et al. Specific combinations of zein genes and genetic backgrounds influence the transcription of the heavy-chain zein genes in maize opaque-2 endosperms. Plant Physiol., 2000. 124(1): p. 451-60 [PMID:10982458] Wang X,Larkins BA Genetic analysis of amino acid accumulation in opaque-2 maize endosperm. Plant Physiol., 2001. 125(4): p. 1766-77 [PMID:11299357] Varagona MJ,Schmidt RJ,Raikhel NV Nuclear localization signal(s) required for nuclear targeting of the maize regulatory protein Opaque-2. Plant Cell, 1992. 4(10): p. 1213-27 [PMID:1332794] Bhat RA,Borst JW,Riehl M,Thompson RD Interaction of maize Opaque-2 and the transcriptional co-activators GCN5 and ADA2, in the modulation of transcriptional activity. Plant Mol. Biol., 2004. 55(2): p. 239-52 [PMID:15604678] Hasjim J,Srichuwong S,Scott MP,Jane JL Kernel composition, starch structure, and enzyme digestibility of opaque-2 maize and quality protein maize. J. Agric. Food Chem., 2009. 57(5): p. 2049-55 [PMID:19206469] Zhang Z,Yang J,Wu Y Transcriptional Regulation of Zein Gene Expression in Maize through the Additive and Synergistic Action of opaque2, Prolamine-Box Binding Factor, and O2 Heterodimerizing Proteins. Plant Cell, 2015. 27(4): p. 1162-72 [PMID:25901087] Morton KJ,Jia S,Zhang C,Holding DR Proteomic profiling of maize opaque endosperm mutants reveals selective accumulation of lysine-enriched proteins. J. Exp. Bot., 2016. 67(5): p. 1381-96 [PMID:26712829] Qiao Z, et al. ZmMADS47 Regulates Zein Gene Transcription through Interaction with Opaque2. PLoS Genet., 2016. 12(4): p. e1005991 [PMID:27077660] Zhou Z, et al. Introgression of opaque2 into Waxy Maize Causes Extensive Biochemical and Proteomic Changes in Endosperm. PLoS ONE, 2016. 11(7): p. e0158971 [PMID:27391593] Yang J,Ji C,Wu Y Divergent Transactivation of Maize Storage Protein Zein Genes by the Transcription Factors Opaque2 and OHPs. Genetics, 2016. 204(2): p. 581-591 [PMID:27474726] Zhang Z,Zheng X,Yang J,Messing J,Wu Y Maize endosperm-specific transcription factors O2 and PBF network the regulation of protein and starch synthesis. Proc. Natl. Acad. Sci. U.S.A., 2016. 113(39): p. 10842-7 [PMID:27621432] Hossain F, et al. Marker-assisted introgression of opaque2 allele for rapid conversion of elite hybrids into quality protein maize. J. Genet., 2018. 97(1): p. 287-298 [PMID:29666347] Gupta HO,Lodha ML,Rastogi DK,Singh J,Mehta SL Nutritional evaluation of hard endosperm opaque-2 maize (Zea mays L.). J. Agric. Food Chem., 1979 Mar-Apr. 27(2): p. 390-2 [PMID:429693] Reddy V,Gupta CP Treatment of kwashiorkor with opaque-2 maize. Am. J. Clin. Nutr., 1974. 27(2): p. 122-4 [PMID:4405944] Quicke GV,Gevers HO Higher lysine levels and improved protein quality of opaque-2 maize. S. Afr. Med. J., 1972. 46(42): p. 1579-84 [PMID:4674887] Pradilla AG,Francis CA,Linares FA Studies on protein quality of flint phenotypes of opaque-2 modified maize. Arch Latinoam Nutr, 1973. 23(2): p. 217-23 [PMID:4714788] Ahuja VP,Srivastava KN,Austin A,Naik MS Changes in different protein fractions and their amino acid composition of the endosperm of opaque-2 composite maize, Shakti, during maturation. Indian J. Biochem. Biophys., 1973. 10(1): p. 48-50 [PMID:4778116] Gupta HO,Lodha ML,Mehta SL,Rastogi DK,Singh J Effect of amino acid(s) and pulse supplementation on nutritional quality of normal and modified opaque-2 maize (Zea mays L.). J. Agric. Food Chem., 1979 Jul-Aug. 27(4): p. 787-90 [PMID:512234] Dalby A,Davies II Ribonuclease activity in the developing seeds of normal and opaque-2 maize. Science, 1967. 155(3769): p. 1573-5 [PMID:6020484] Lee L,Tsai CY Zein synthesis in the embryo and endosperm of maize mutants. Biochem. Genet., 1984. 22(7-8): p. 729-37 [PMID:6497834] Fuwa H,Glover DV,Sugimoto Y,Tanaka M Comparative susceptibility to amylases of starch granules of several single endosperm mutants representative of floury-opaque, starch-deficient, and modified starch types and their double-mutant combinations with opaque-2 in four inbred lines of maize. J. Nutr. Sci. Vitaminol., 1978. 24(4): p. 437-48 [PMID:712436] Tsai CY,Larkins BA,Glover DV Interaction of the opaque-2 gene with starch-forming mutant genes on the synthesis of zein in maize endosperm. Biochem. Genet., 1978. 16(9-10): p. 883-96 [PMID:743193] Michel D, et al. Insertion mutations at the maize Opaque2 locus induced by transposable element families Ac, En/Spm and Bg. Mol. Gen. Genet., 1995. 248(3): p. 287-92 [PMID:7565590] Lopes MA,Takasaki K,Bostwick DE,Helentjaris T,Larkins BA Identification of two opaque2 modifier loci in quality protein maize. Mol. Gen. Genet., 1995. 247(5): p. 603-13 [PMID:7603440] Cord Neto G, et al. The involvement of Opaque 2 on beta-prolamin gene regulation in maize and Coix suggests a more general role for this transcriptional activator. Plant Mol. Biol., 1995. 27(5): p. 1015-29 [PMID:7766871] Dannenhoffer JM,Bostwick DE,Or E,Larkins BA opaque-15, a maize mutation with properties of a defective opaque-2 modifier. Proc. Natl. Acad. Sci. U.S.A., 1995. 92(6): p. 1931-5 [PMID:7892202] Varagona MJ,Raikhel NV The basic domain in the bZIP regulatory protein Opaque2 serves two independent functions: DNA binding and nuclear localization. Plant J., 1994. 5(2): p. 207-14 [PMID:8148877] Michel D,Salamini F,Motto M,Döring HP An unstable allele at the maize Opaque2 locus is caused by the insertion of a double Ac element. Mol. Gen. Genet., 1994. 243(3): p. 334-42 [PMID:8190086] Habben JE,Kirleis AW,Larkins BA The origin of lysine-containing proteins in opaque-2 maize endosperm. Plant Mol. Biol., 1993. 23(4): p. 825-38 [PMID:8251635] Maddaloni M, et al. The transcriptional activator Opaque-2 controls the expression of a cytosolic form of pyruvate orthophosphate dikinase-1 in maize endosperms. Mol. Gen. Genet., 1996. 250(5): p. 647-54 [PMID:8676867] Gallusci P,Varotto S,Matsuoko M,Maddaloni M,Thompson RD Regulation of cytosolic pyruvate, orthophosphate dikinase expression in developing maize endosperm. Plant Mol. Biol., 1996. 31(1): p. 45-55 [PMID:8704158] Pysh LD,Schmidt RJ Characterization of the maize OHP1 gene: evidence of gene copy variability among inbreds. Gene, 1996. 177(1-2): p. 203-8 [PMID:8921868] Rossi V,Motto M,Pellegrini L Analysis of the methylation pattern of the maize opaque-2 (O2) promoter and in vitro binding studies indicate that the O2 B-Zip protein and other endosperm factors can bind to methylated target sequences. J. Biol. Chem., 1997. 272(21): p. 13758-65 [PMID:9153230]