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

NNU_011506-RA

Organism

Nelumbo nucifera

Taxonomic ID

4432

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; stem eudicotyledons; Proteales; Nelumbonaceae; Nelumbo

Family

Protein Properties

Length: 156aa MW: 17317.4 Da PI: 6.2643

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
NNU_011506-RA	genome	CAS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	69.4	4.9e-22	47	147	1	98
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 f k+lt+sd+++ g +++p+ +ae++ +++ + t+ +d +g++W++++iyr++++r++lt+ W+ Fv++++L +gD++vF + ++ NNU_011506-RA 47 FAKTLTQSDANNGGGFSVPRYCAETIfprldysAYPPVQ--TVLAKDVHGEVWKFQHIYRGTPRRHLLTTEWSTFVNQKKLIAGDSIVFL--RAEN 138 89**************************998777777..8999*******************************************..4489 PP E..EEEEE- CS B3 90 felvvkvfr 98 +e +v++ r NNU_011506-RA 139 GEIYVGIQR 147 999999977 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	4.7E-35	36	150	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	4.71E-28	44	143	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	4.00E-19	46	145	No hit	No description
SMART	SM01019	6.8E-19	47	149	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.434	47	149	IPR003340	B3 DNA binding domain
Pfam	PF02362	2.5E-20	47	148	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: 156 aa Download sequence Send to blast
MRRGLCEDKV GTLPNNEPDY DDDGVLENNG SDIVEKPAAF AEKPASFAKT LTQSDANNGG 60 GFSVPRYCAE TIFPRLDYSA YPPVQTVLAK DVHGEVWKFQ HIYRGTPRRH LLTTEWSTFV 120 NQKKLIAGDS IVFLRAENGE IYVGIQREKR GVGSGP

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-37	47	156	158	267	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_010253698.1	1e-79	PREDICTED: auxin response factor 18-like
Swissprot	Q9SKN5	3e-65	ARFJ_ARATH; Auxin response factor 10
TrEMBL	A0A1U7ZKL2	3e-78	A0A1U7ZKL2_NELNU; Auxin response factor
STRING	XP_010253698.1	5e-79	(Nelumbo nucifera)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G28350.1	1e-67	auxin response factor 10

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] 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] Nguyen TC,Obermeier C,Friedt W,Abrams SR,Snowdon RJ Disruption of Germination and Seedling Development in Brassica napus by Mutations Causing Severe Seed Hormonal Imbalance. Front Plant Sci, 2016. 7: p. 322 [PMID:27014334] 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]