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

Lus10008916

Organism

Linum usitatissimum

Taxonomic ID

4006

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Linaceae; Linum

Family

GRF

Protein Properties

Length: 172aa MW: 19936.8 Da PI: 9.913

Description

GRF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Lus10008916	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	WRC	66.7	3.1e-21	124	167	1	43
WRC 1 daepgrCrRtDGKkWRCsrrvlegkklCErHlhrgr.srsrksk 43 d+epgrCrRtDGKkWRCs++ l+++k+C++H+hrgr +rsrk++ Lus10008916 124 DDEPGRCRRTDGKKWRCSKESLPDHKYCQKHIHRGRlNRSRKRV 167 68**********************************44555555 PP
2	QLQ	42.2	2.4e-15	56	90	3	37
QLQ 3 FTaaQlqlLksQilAyKyLaanqPvPpeLlqaiqk 37 FT +Qlq+L Q ++yKy+ a++ vP+ Ll++i++ Lus10008916 56 FTVSQLQELQLQWMIYKYIEAGLRVPQTLLVPIWN 90 9*********************************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00951	4.1E-5	54	90	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51666	16.905	55	90	IPR014978	Glutamine-Leucine-Glutamine, QLQ
Pfam	PF08880	1.4E-10	56	89	IPR014978	Glutamine-Leucine-Glutamine, QLQ
PROSITE profile	PS51667	23.269	124	169	IPR014977	WRC domain
Pfam	PF08879	1.1E-17	126	165	IPR014977	WRC domain

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:0005524	Molecular Function	ATP binding

Sequence ? help Back to Top
Protein Sequence Length: 172 aa Download sequence Send to blast
MENNESQPVY QSESSSLPRR IPTVGLGLGL MTGNDEDDRN HDTTLQLGKL RLGVVFTVSQ 60 LQELQLQWMI YKYIEAGLRV PQTLLVPIWN SFHSAVPFVN APTLSLSWTQ WREMSRYKKG 120 VDLDDEPGRC RRTDGKKWRC SKESLPDHKY CQKHIHRGRL NRSRKRVELM Q*

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator that plays a role in the regulation of meristematic function in leaves, stems and inflorescences (PubMed:24532604). Transcription activator that plays a regulatory role in grain development (PubMed:26187814, PubMed:27250747, PubMed:27250749, PubMed:26936408, PubMed:27107174). Positively regulates grain size by promoting cell division and expansion, leading to increased grain length and width (PubMed:26187814, PubMed:27250747, PubMed:27250749, PubMed:26936408, PubMed:27107174). Positively regulates the expression of genes promoting cell proliferation (PubMed:26187814, PubMed:26936408). Activates the expression of expansin genes to promote cell expansion and grain size (PubMed:27250747). May promote grain size by activating brassinosteroid responses (PubMed:27250747). Component of a network formed by the microRNA396 (miRNA396), the GRFs and their interacting factors (GIFs) acting in the regulation of meristem function, at least partially through the control of cell proliferation (Probable). Component of the miRNA396c-GRF4-GIF1 regulatory module that plays an important role in grain size determination (Probable) (PubMed:27250747, PubMed:27250749, PubMed:27107174). {ECO:0000269\|PubMed:24532604, ECO:0000269\|PubMed:26187814, ECO:0000269\|PubMed:26936408, ECO:0000269\|PubMed:27107174, ECO:0000269\|PubMed:27250747, ECO:0000269\|PubMed:27250749, ECO:0000305\|PubMed:26187814, ECO:0000305\|PubMed:27107174, ECO:0000305\|PubMed:27250747, ECO:0000305\|PubMed:27250749}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Lus10008916

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: The microRNA396c negatively regulates GRF4 at the transcriptional level. {ECO:0000269\|PubMed:26187814, ECO:0000269\|PubMed:26936408, ECO:0000269\|PubMed:27107174, ECO:0000269\|PubMed:27250747}.

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Swissprot	Q6ZIK5	2e-30	GRF4_ORYSJ; Growth-regulating factor 4
TrEMBL	A0A445HV78	1e-34	A0A445HV78_GLYSO; Growth-regulating factor 4
TrEMBL	A0A445M7D1	1e-34	A0A445M7D1_GLYSO; Growth-regulating factor 4 isoform B
TrEMBL	I1LFW5	1e-34	I1LFW5_SOYBN; Uncharacterized protein
STRING	Lus10008916	1e-125	(Linum usitatissimum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF14195	10	17

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G37740.1	8e-32	growth-regulating factor 2

Link Out ? help Back to Top
Phytozome	Lus10008916

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] Kuijt SJ, et al. Interaction between the GROWTH-REGULATING FACTOR and KNOTTED1-LIKE HOMEOBOX families of transcription factors. Plant Physiol., 2014. 164(4): p. 1952-66 [PMID:24532604] Hu J, et al. A Rare Allele of GS2 Enhances Grain Size and Grain Yield in Rice. Mol Plant, 2015. 8(10): p. 1455-65 [PMID:26187814] Sun P, et al. OsGRF4 controls grain shape, panicle length and seed shattering in rice. J Integr Plant Biol, 2016. 58(10): p. 836-847 [PMID:26936408] Li S, et al. The OsmiR396c-OsGRF4-OsGIF1 regulatory module determines grain size and yield in rice. Plant Biotechnol. J., 2016. 14(11): p. 2134-2146 [PMID:27107174] Che R, et al. Control of grain size and rice yield by GL2-mediated brassinosteroid responses. Nat Plants, 2015. 2: p. 15195 [PMID:27250747] Duan P, et al. Regulation of OsGRF4 by OsmiR396 controls grain size and yield in rice. Nat Plants, 2015. 2: p. 15203 [PMID:27250749]