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.002G418100.1.p

Common Name

Sb02g042990, SORBIDRAFT_02g042990

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: 375aa MW: 40171 Da PI: 6.9755

Description

bZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.002G418100.1.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	31.7	3.4e-10	170	216	5	51
CHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH CS bZIP_1 5 krerrkqkNReAArrsRqRKkaeieeLeekvkeLeaeNkaLkkelee 51 kr++r + NR +A rs +RK +i eLe+kv++L++e ++L +l Sobic.002G418100.1.p 170 KRAKRIIANRQSAARSKERKARYITELERKVQTLQTEATTLSAQLTL 216 9****************************************988765 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00338	8.1E-15	166	230	IPR004827	Basic-leucine zipper domain
PROSITE profile	PS50217	10.53	168	231	IPR004827	Basic-leucine zipper domain
Gene3D	G3DSA:1.20.5.170	3.9E-10	170	224	No hit	No description
SuperFamily	SSF57959	8.84E-11	170	221	No hit	No description
Pfam	PF00170	4.4E-9	170	214	IPR004827	Basic-leucine zipper domain
CDD	cd14703	2.03E-22	171	220	No hit	No description

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: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: 375 aa Download sequence Send to blast
MAMPPKPGDP PQRSPGRSPN LNLPCPLPPV PGGAPAPPPQ HQPGAGLPPP RVGHHRRARS 60 EVAFRFPDDL AGAGAGGFDE IGSEDDLFST FMDMDKIAGA DRDRAAETSS PPRPAKHRHS 120 ASFDGFGMGA GAGGPGGQQD GGGGVFGEVM EAKKAMSSEQ LAELAAIDPK RAKRIIANRQ 180 SAARSKERKA RYITELERKV QTLQTEATTL SAQLTLFQRD TTGLSAENAE LKIRLQAMEQ 240 QAQLRDALND ALKQEVERLK IATGEMSKSN EQFNMGMQHI SYSPSFFQLS EQHTVQQHGN 300 IQLPHHFQQP PPNVPSHQML SHPNSLSDMM QQDSLGRLQG LDIGKGSMAV KSEAEVVVKS 360 EGSSISAGES NTTF*

Sequence ? help Back to Top

Protein Sequence Length: 375 aa Download sequence Send to blast

MAMPPKPGDP PQRSPGRSPN LNLPCPLPPV PGGAPAPPPQ HQPGAGLPPP RVGHHRRARS  60
EVAFRFPDDL AGAGAGGFDE IGSEDDLFST FMDMDKIAGA DRDRAAETSS PPRPAKHRHS  120
ASFDGFGMGA GAGGPGGQQD GGGGVFGEVM EAKKAMSSEQ LAELAAIDPK RAKRIIANRQ  180
SAARSKERKA RYITELERKV QTLQTEATTL SAQLTLFQRD TTGLSAENAE LKIRLQAMEQ  240
QAQLRDALND ALKQEVERLK IATGEMSKSN EQFNMGMQHI SYSPSFFQLS EQHTVQQHGN  300
IQLPHHFQQP PPNVPSHQML SHPNSLSDMM QQDSLGRLQG LDIGKGSMAV KSEAEVVVKS  360
EGSSISAGES NTTF*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed at high levels in roots, low level in leaf sheath, but not in leaf blade. Predominantly expressed in vascular tissues. {ECO:0000269\|PubMed:14704272}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor probably involved in vascular development and shoot tissue organization. Binds to the DNA sequence 5'-CCGAGTGTGCCCCTGG-3' present in the promoter region Box II of the phloem-specific rice tungro bacilliform virus (RTBV) promoter. May regulate tissue-specific expression of the RTBV promoter and virus replication. {ECO:0000269\|PubMed:14704272}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00303	DAP	Transfer from AT2G40620	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sobic.002G418100.1.p

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	EU964870	0.0	EU964870.1 Zea mays clone 282242 transcription factor RF2b mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002463392.1	0.0	transcription factor RF2b
Swissprot	Q6S4P4	1e-142	RF2B_ORYSJ; Transcription factor RF2b
TrEMBL	C5X5M0	0.0	C5X5M0_SORBI; Uncharacterized protein
STRING	Sb02g042990.1	0.0	(Sorghum bicolor)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G40620.1	4e-84	bZIP family protein

Link Out ? help Back to Top
Phytozome	Sobic.002G418100.1.p
Entrez Gene	8074450

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Dai S,Zhang Z,Bick J,Beachy RN Essential role of the Box II cis element and cognate host factors in regulating the promoter of Rice tungro bacilliform virus. J. Gen. Virol., 2006. 87(Pt 3): p. 715-22 [PMID:16476995] Liu Y,Dai S,Beachy RN Role of the C-terminal domains of rice (Oryza sativa L.) bZIP proteins RF2a and RF2b in regulating transcription. Biochem. J., 2007. 405(2): p. 243-9 [PMID:17371296] Dai S, et al. Transgenic rice plants that overexpress transcription factors RF2a and RF2b are tolerant to rice tungro virus replication and disease. Proc. Natl. Acad. Sci. U.S.A., 2008. 105(52): p. 21012-6 [PMID:19104064]