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

Lsa004307

Organism

Lactuca sativa

Taxonomic ID

4236

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; campanulids; Asterales; Asteraceae; Cichorioideae; Cichorieae; Lactucinae; Lactuca

Family

Protein Properties

Length: 207aa MW: 22600.1 Da PI: 8.3302

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
gnl\|UG\|Lsa#S58667585	PU_ref	Unigene	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	77.3	1.6e-24	59	160	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelv 93 f k+lt+sd+++ g +++p+ +ae++ +++ + t+ +d +g+ W++++iyr++++r++lt+GW++Fv++++L +gD++vF + +++ l+ Lsa004307 59 FAKTLTQSDANNGGGFSVPRYCAETIfprldytAEPPVQ--TILAKDVHGKLWKFRHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFLR--ADNGDLC 154 89**************************986555555..8999******************************************3..478888 PP EEEE-S CS B3 94 vkvfrk 99 v+++r+ Lsa004307 155 VGIRRA 160 ***997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	4.4E-38	51	162	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	2.49E-31	52	183	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.64E-23	58	159	No hit	No description
Pfam	PF02362	9.4E-23	59	160	IPR003340	B3 DNA binding domain
SMART	SM01019	6.3E-22	59	161	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	13.281	59	161	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: 207 aa Download sequence Send to blast
XILCGVSTVK FMADSDTDEV YAKIGLVPLG NHSDCDFEND GFLGFDHIKN ENQEKPASFA 60 KTLTQSDANN GGGFSVPRYC AETIFPRLDY TAEPPVQTIL AKDVHGKLWK FRHIYRGTPR 120 RHLLTTGWSN FVNQKKLVAG DSIVFLRADN GDLCVGIRRA KRGIGRGFHD SNSSGWNTSI 180 PGYGNSGKVS AESVIEAANL AATGRPF

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-47	2	162	106	261	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). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. {ECO:0000269\|PubMed:12036261}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_023734677.1	1e-148	auxin response factor 16-like
Refseq	XP_023734678.1	1e-148	auxin response factor 16-like
Swissprot	Q93YR9	1e-88	ARFP_ARATH; Auxin response factor 16
TrEMBL	A0A2J6KDI3	1e-147	A0A2J6KDI3_LACSA; Auxin response factor
STRING	XP_009784518.1	1e-100	(Nicotiana sylvestris)
STRING	XP_009602628.1	1e-100	(Nicotiana tomentosiformis)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G30080.1	3e-82	auxin response factor 16

Publications ? help Back to Top
Yang ZB, et al. TAA1-regulated local auxin biosynthesis in the root-apex transition zone mediates the aluminum-induced inhibition of root growth in Arabidopsis. Plant Cell, 2014. 26(7): p. 2889-904 [PMID:25052716] Bennett T,van den Toorn A,Willemsen V,Scheres B Precise control of plant stem cell activity through parallel regulatory inputs. Development, 2014. 141(21): p. 4055-64 [PMID:25256342] Zhang GZ, et al. Ectopic expression of UGT75D1, a glycosyltransferase preferring indole-3-butyric acid, modulates cotyledon development and stress tolerance in seed germination of Arabidopsis thaliana. Plant Mol. Biol., 2016. 90(1-2): p. 77-93 [PMID:26496910] Ye Y, et al. Germostatin resistance locus 1 encodes a PHD finger protein involved in auxin-mediated seed dormancy and germination. Plant J., 2016. 85(1): p. 3-15 [PMID:26611158] Liu Z, et al. Repression of callus initiation by the miRNA-directed interaction of auxin-cytokinin in Arabidopsis thaliana. Plant J., 2016. 87(4): p. 391-402 [PMID:27189514] 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] Wójcik AM,Nodine MD,Gaj MD miR160 and miR166/165 Contribute to the LEC2-Mediated Auxin Response Involved in the Somatic Embryogenesis Induction in Arabidopsis. Front Plant Sci, 2017. 8: p. 2024 [PMID:29321785] Lin JS, et al. MicroRNA160 Modulates Plant Development and Heat Shock Protein Gene Expression to Mediate Heat Tolerance in Arabidopsis. Front Plant Sci, 2018. 9: p. 68 [PMID:29449855]