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

Neem_32147_f_1

Organism

Azadirachta indica

Taxonomic ID

124943

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta

Family

ARF

Protein Properties

Length: 327aa MW: 35921.7 Da PI: 8.8985

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Neem_32147_f_1	genome	NGD	View Nucleic Acid

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	75.1	8.1e-24	59	160	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 f k+lt+sd+++ g +++p+ +ae++ ++ + t++ +d +g+ W++++iyr++++r++lt+GW+ Fv++++L +gD++vF + + Neem_32147_f_1 59 FAKTLTQSDANNGGGFSVPRYCAETIfprldytADPPVQ--TVVAKDVHGEIWKFRHIYRGTPRRHLLTTGWSTFVNQKKLVAGDSIVFLRA--Q 149 89**************************997556555..8********************************************43..6 PP EE..EEEEE-S CS B3 89 efelvvkvfrk 99 ++ l+v+++r+ Neem_32147_f_1 150 NGDLCVGIRRA 160 7778**996 PP
2	Auxin_resp	113.4	2.2e-37	237	320	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 aa a+++++FevvY+Prast+eF+vk++ v++a++v++ GmRfkmafetedss++++ +Gt+++ + +dp+rWp+S+Wr+L+ Neem_32147_f_1 237 AAALAANGKPFEVVYYPRASTPEFCVKASAVRAAMRVHWHCGMRFKMAFETEDSSRISWfMGTISSAQVADPIRWPKSPWRLLQ 320 678899****************************************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	2.35E-29	52	165	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	9.4E-38	52	168	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	3.74E-22	58	159	No hit	No description
PROSITE profile	PS50863	12.887	59	161	IPR003340	B3 DNA binding domain
Pfam	PF02362	5.7E-22	59	160	IPR003340	B3 DNA binding domain
SMART	SM01019	3.6E-22	59	161	IPR003340	B3 DNA binding domain
Pfam	PF06507	4.0E-33	237	320	IPR010525	Auxin response factor

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009725	Biological Process	response to hormone
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 327 aa Download sequence Send to blast
PLILCRATSL KFLADSETDE VYAKIRLVPI PATEIDFEDN DLSLNSAGSD AESDKPASFA 60 KTLTQSDANN GGGFSVPRYC AETIFPRLDY TADPPVQTVV AKDVHGEIWK FRHIYRGTPR 120 RHLLTTGWST FVNQKKLVAG DSIVFLRAQN GDLCVGIRRA KKGIGNANDS LSSGWNSNHG 180 SCVTVNPYGG FSCFLREEEN KMVRNGNMNL NSCGSFNSGG NLRGNGGKVK PEMVLEAAAL 240 AANGKPFEVV YYPRASTPEF CVKASAVRAA MRVHWHCGMR FKMAFETEDS SRISWFMGTI 300 SSAQVADPIR WPKSPWRLLQ GKLNLSN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	5e-51	3	320	106	367	Auxin response factor 5
4ldv_A	2e-51	3	320	73	332	Auxin response factor 1
4ldw_A	2e-51	3	320	73	332	Auxin response factor 1
4ldw_B	2e-51	3	320	73	332	Auxin response factor 1
4ldx_A	2e-51	3	320	73	332	Auxin response factor 1
4ldx_B	2e-51	3	320	73	332	Auxin response factor 1
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_006424557.1	0.0	auxin response factor 10
Swissprot	Q93YR9	1e-144	ARFP_ARATH; Auxin response factor 16
TrEMBL	A0A067G123	0.0	A0A067G123_CITSI; Auxin response factor (Fragment)
TrEMBL	V4SBC2	0.0	V4SBC2_9ROSI; Auxin response factor
STRING	XP_006424557.1	0.0	(Citrus clementina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM580	27	130

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G30080.1	1e-146	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]