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

PSME_00015886-RA

Organism

Pseudotsuga menziesii

Taxonomic ID

3357

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Acrogymnospermae; Pinidae; Pinales; Pinaceae; Pseudotsuga

Family

Protein Properties

Length: 249aa MW: 27804.7 Da PI: 9.2254

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PSME_00015886-RA	genome	PRS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	80.5	1.6e-25	107	208	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 f+k+lt sd++++g +++p++ ae+ ++++ + +l+ +d++ ++W++++iyr++++r++lt+GW+ Fv+a++L +gD v+F + PSME_00015886-RA 107 FCKTLTASDTSTHGGFSIPRRAAEKVfppldftQQPPVQ--ELVARDLHDNEWKFRHIYRGQPKRHLLTTGWSVFVSAKRLSAGDAVLFI--R 195 99***************************96655555..8********************************************..6 PP SSEE..EEEEE-S CS B3 87 rsefelvvkvfrk 99 +++++l+++++r+ PSME_00015886-RA 196 NEKGQLLLGIRRA 208 69999***997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	5.62E-50	92	236	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	2.1E-43	100	222	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	7.86E-22	106	207	No hit	No description
SMART	SM01019	2.2E-24	107	209	IPR003340	B3 DNA binding domain
Pfam	PF02362	2.0E-23	107	208	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	12.901	107	209	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: 249 aa Download sequence Send to blast
MILVFFLGIR GPCDFLKTTV QRRNLGKSCE ILFKTELSEG SGCHSFSVVG PKHSNSIIHY 60 FIGNQADVET DEVYAQMTLQ PLSVQEQKES YLAPDLGTQS RQPTNYFCKT LTASDTSTHG 120 GFSIPRRAAE KVFPPLDFTQ QPPVQELVAR DLHDNEWKFR HIYRGQPKRH LLTTGWSVFV 180 SAKRLSAGDA VLFIRNEKGQ LLLGIRRANR SQTVMPSSVL SSDSMHIGVL AAAAHAASTN 240 CRFTIFYNP

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	9e-88	66	249	117	300	Auxin response factor 5
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Auxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs). Seems to act as transcriptional activator. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Regulates both stamen and gynoecium maturation. Promotes jasmonic acid production. Partially redundant with ARF8. {ECO:0000269\|PubMed:12036261, ECO:0000269\|PubMed:16107481}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by miR167. {ECO:0000269\|PubMed:17021043}.

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
Refseq	XP_021295181.1	1e-106	auxin response factor 6 isoform X1
Refseq	XP_021904769.1	1e-108	auxin response factor 6
Swissprot	Q9ZTX8	1e-104	ARFF_ARATH; Auxin response factor 6
TrEMBL	A0A059DH82	1e-110	A0A059DH82_EUCGR; Auxin response factor (Fragment)
STRING	evm.model.supercontig_17.53	1e-111	(Carica papaya)
STRING	XP_002532983.1	1e-109	(Ricinus communis)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G30330.1	1e-106	auxin response factor 6

Publications ? help Back to Top
Liu N, et al. Down-regulation of AUXIN RESPONSE FACTORS 6 and 8 by microRNA 167 leads to floral development defects and female sterility in tomato. J. Exp. Bot., 2014. 65(9): p. 2507-20 [PMID:24723401] Oh E, et al. Cell elongation is regulated through a central circuit of interacting transcription factors in the Arabidopsis hypocotyl. Elife, 2015. [PMID:24867218] Minato N, et al. The phytoplasmal virulence factor TENGU causes plant sterility by downregulating of the jasmonic acid and auxin pathways. Sci Rep, 2014. 4: p. 7399 [PMID:25492247] Ortega-Amaro MA, et al. Overexpression of AtGRDP2, a novel glycine-rich domain protein, accelerates plant growth and improves stress tolerance. Front Plant Sci, 2014. 5: p. 782 [PMID:25653657] Asahina M,Satoh S Molecular and physiological mechanisms regulating tissue reunion in incised plant tissues. J. Plant Res., 2015. 128(3): p. 381-8 [PMID:25736731] Batista VG,Pinheiro MP,Melo Filho PA,Santos RC,Lima LM Temporal and tissue expression of genes involved in buds of earliness cotton cultivar. Genet. Mol. Res., 2015. 14(3): p. 7386-94 [PMID:26214417] Li P, et al. Ca(2+) -regulated and diurnal rhythm-regulated Na(+) /Ca(2+) exchanger AtNCL affects flowering time and auxin signalling in Arabidopsis. Plant Cell Environ., 2016. 39(2): p. 377-92 [PMID:26296956] Barik S, et al. Coevolution Pattern and Functional Conservation or Divergence of miR167s and their targets across Diverse Plant Species. Sci Rep, 2015. 5: p. 14611 [PMID:26459056] Luo S, et al. Constitutive Expression of OsIAA9 Affects Starch Granules Accumulation and Root Gravitropic Response in Arabidopsis. Front Plant Sci, 2015. 6: p. 1156 [PMID:26734051] Wójcikowska B,Gaj MD Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis. Plant Cell Rep., 2017. 36(6): p. 843-858 [PMID:28255787] Zhang GZ, et al. Ectopic expression of UGT84A2 delayed flowering by indole-3-butyric acid-mediated transcriptional repression of ARF6 and ARF8 genes in Arabidopsis. Plant Cell Rep., 2017. 36(12): p. 1995-2006 [PMID:29027578] Liu Z, et al. ARF2-ARF4 and ARF5 are Essential for Female and Male Gametophyte Development in Arabidopsis. Plant Cell Physiol., 2018. 59(1): p. 179-189 [PMID:29145642]