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.002G161600.1.p

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

Protein Properties

Length: 403aa MW: 43706.1 Da PI: 7.4304

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.002G161600.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	56.9	3.9e-18	259	355	2	95
EEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEE.TTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS B3 2 fkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltled.esgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkld 85 +k+l++sdv+++gr+vlpk ae h ++k++ ++ + +ed ++r+W++++++ ++ks++yvl+ ++ eFv++n+L++gDf+v++ Sobic.002G161600.1.p 259 QKELKQSDVGELGRIVLPKMEAEVHlpELKTKYGISIPMEDiGTSRVWNMQYRFwsDNKSRMYVLG-NTGEFVRSNELQQGDFIVIY-- 344 799**********************999999****7778***998999999999.********************.. PP SS.SEE..EEE CS B3 86 gr.sefelvvk 95 ++ ++++++++ Sobic.002G161600.1.p 345 SDvKSGKYLIQ 355 55588888776 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	2.3E-23	250	361	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	3.14E-19	257	353	IPR015300	DNA-binding pseudobarrel domain
SMART	SM01019	2.3E-14	258	360	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	9.516	258	360	IPR003340	B3 DNA binding domain
Pfam	PF02362	5.1E-14	259	354	IPR003340	B3 DNA binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 403 aa Download sequence Send to blast
MDASTGVPSK PASAGMDVMS APPHLASDAD GSREEKYVPG VTGSEVAYTH VSAAGEEEPP 60 QFLIDWWVTS IRESISAEDL CNIRFRRSTI QAATARLGGG RQGNLQLLKL IFTWVQNNHQ 120 RPRDVMEEAA GLHGQVSSSP PGANPVPGYE FPAGGQHIAA GGGTSLTPLI QQPSTPPARA 180 AGQHHLFHQS SSKSSVVVSR QLFSPGFGGQ YAGAASHLIM AGVEASATKE KQKDDSVQRL 240 AAYKRQGAKA EEKLRFLLQK ELKQSDVGEL GRIVLPKMEA EVHLPELKTK YGISIPMEDI 300 GTSRVWNMQY RFWSDNKSRM YVLGNTGEFV RSNELQQGDF IVIYSDVKSG KYLIQGVKVK 360 PPDTTTTDSA HLVRDTSEVD LDEVDKKKER TSTDGGSFKS KL*

Sequence ? help Back to Top

Protein Sequence Length: 403 aa Download sequence Send to blast

MDASTGVPSK PASAGMDVMS APPHLASDAD GSREEKYVPG VTGSEVAYTH VSAAGEEEPP  60
QFLIDWWVTS IRESISAEDL CNIRFRRSTI QAATARLGGG RQGNLQLLKL IFTWVQNNHQ  120
RPRDVMEEAA GLHGQVSSSP PGANPVPGYE FPAGGQHIAA GGGTSLTPLI QQPSTPPARA  180
AGQHHLFHQS SSKSSVVVSR QLFSPGFGGQ YAGAASHLIM AGVEASATKE KQKDDSVQRL  240
AAYKRQGAKA EEKLRFLLQK ELKQSDVGEL GRIVLPKMEA EVHLPELKTK YGISIPMEDI  300
GTSRVWNMQY RFWSDNKSRM YVLGNTGEFV RSNELQQGDF IVIYSDVKSG KYLIQGVKVK  360
PPDTTTTDSA HLVRDTSEVD LDEVDKKKER TSTDGGSFKS KL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6j9b_A	1e-35	254	358	1	105	B3 domain-containing transcription factor FUS3
6j9b_D	1e-35	254	358	1	105	B3 domain-containing transcription factor FUS3
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Between 10 and 30 days after pollination.
Uniprot	TISSUE SPECIFICITY: Seed.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional activator specifically required for expression of the maturation program in the seed development. Probably potentiates the response to the seed-specific hormone abscisic acid (ABA). May bind to DNA indirectly.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sobic.002G161600.1.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	MZEREGPRO	1e-120	M60214.1 Zea mays viviparous-1 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_021308714.1	0.0	regulatory protein viviparous-1-like
Refseq	XP_021308715.1	0.0	regulatory protein viviparous-1-like
Swissprot	P26307	2e-66	VIV1_MAIZE; Regulatory protein viviparous-1
TrEMBL	A0A1B6QBR4	0.0	A0A1B6QBR4_SORBI; Uncharacterized protein
STRING	Sb03g043480.1	2e-65	(Sorghum bicolor)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP7529	34	43
Representative plant	OGRP788	17	66

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G24650.1	2e-57	B3 family protein

Link Out ? help Back to Top
Phytozome	Sobic.002G161600.1.p

Publications ? help Back to Top
Williamson JD,Scandalios JG Differential response of maize catalases to abscisic acid: Vp1 transcriptional activator is not required for abscisic acid-regulated Cat1 expression. Proc. Natl. Acad. Sci. U.S.A., 1992. 89(18): p. 8842-6 [PMID:1388272] Hoecker U,Vasil IK,McCarty DR Integrated control of seed maturation and germination programs by activator and repressor functions of Viviparous-1 of maize. Genes Dev., 1995. 9(20): p. 2459-69 [PMID:7590227]