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

Potri.002G197000.1

Common Name

POPTR_0002s19810g

Organism

Populus trichocarpa

Taxonomic ID

3694

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus

Family

Protein Properties

Length: 92aa MW: 10595.1 Da PI: 8.5128

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.002G197000.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	41.5	2.3e-13	20	86	31	98
.--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS.SEE..EEEEE- CS B3 31 eesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr.sefelvvkvfr 98 +e t+ +d +g++W++++iyr+ ++r++l +GW++Fv+ ++ g + F+ ++r +f l + v+r Potri.002G197000.1 20 PE-ETILAKDVHGETWKFRHIYRGAPRRHLLNTGWSNFVNKKNSWLGTRLCFS-EQRiGTFVLEFDVLR 86 33.38999*********************************998777777777.455566666666655 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50863	9.53	1	88	IPR003340	B3 DNA binding domain
SuperFamily	SSF101936	8.11E-14	9	76	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	4.1E-15	10	76	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	6.56E-8	18	61	No hit	No description
Pfam	PF02362	5.1E-11	19	84	IPR003340	B3 DNA binding 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:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 92 aa Download sequence Send to blast
MVPILESTTF SRLDYTAEPP EETILAKDVH GETWKFRHIY RGAPRRHLLN TGWSNFVNKK 60 NSWLGTRLCF SEQRIGTFVL EFDVLREGLV A*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	2e-17	10	70	184	244	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Potri.002G197000.1

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_002316370.3	1e-27	auxin response factor 18
Refseq	XP_011041011.1	1e-27	PREDICTED: auxin response factor 18-like
Swissprot	Q93YR9	5e-26	ARFP_ARATH; Auxin response factor 16
TrEMBL	B9GSR6	2e-61	B9GSR6_POPTR; Uncharacterized protein
STRING	POPTR_0002s19810.1	3e-62	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF15884	6	10
Representative plant	OGRP526	15	78

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G30080.1	2e-28	auxin response factor 16

Link Out ? help Back to Top
Phytozome	Potri.002G197000.1
Entrez Gene	7460452

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]