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

Medtr5g062970.1

Common Name

MTR_5g062970

Organism

Medicago truncatula

Taxonomic ID

3880

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Medicago

Family

Protein Properties

Length: 240aa MW: 26852.1 Da PI: 7.6642

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Medtr5g062970.1	genome	Mt	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	62.1	9.3e-20	138	225	1	83
EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 f+k+lt+sd ++ + +++p ++++ + + ++ s++l+++d +gr W+ ++iyr+ks+r+++++GW +Fv+ ++L +gD++vF Medtr5g062970.1 138 FVKILTQSDCNSGCGFIVPLPCVDLIlpklslD-DPMPSQKLSVTDIQGRIWQYTHIYRGKSKRHLFSRGWTSFVNNKKLVAGDSFVFI 225 89*******************888963.4455679*********************************************6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	1.31E-23	135	230	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	4.5E-25	136	228	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	6.37E-18	137	224	No hit	No description
Pfam	PF02362	6.8E-17	138	225	IPR003340	B3 DNA binding domain
SMART	SM01019	8.2E-11	138	235	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	10.729	138	239	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: 240 aa Download sequence Send to blast
MMLITISNRA QSSALLSDTG ELHSEAFPTK SIFTIPTKIW QKCVGASVKI PKLHSKVYYF 60 PQGHLKHVSP HTIITLLHCY PPSISCIISA VDLLVDPHTD EVFAKLLLTP VMDGHGHEQE 120 APPEVPAEDD DGYNVVSFVK ILTQSDCNSG CGFIVPLPCV DLILPKLSLD DPMPSQKLSV 180 TDIQGRIWQY THIYRGKSKR HLFSRGWTSF VNNKKLVAGD SFVFIKNSAW WLMLNWHHH*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	2e-37	38	239	22	225	Auxin response factor 1
4ldw_A	2e-37	38	239	22	225	Auxin response factor 1
4ldw_B	2e-37	38	239	22	225	Auxin response factor 1
4ldx_A	1e-37	38	239	22	225	Auxin response factor 1
4ldx_B	1e-37	38	239	22	225	Auxin response factor 1
4ldy_A	2e-37	38	239	22	225	Auxin response factor 1
4ldy_B	2e-37	38	239	22	225	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Medtr5g062970.1

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	CU914132	0.0	CU914132.2 Medicago truncatula chromosome 5 clone mth2-49m20, COMPLETE SEQUENCE.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_024640663.1	1e-160	auxin response factor 17
Swissprot	Q84WU6	1e-54	ARFQ_ARATH; Auxin response factor 17
TrEMBL	G7KAA1	1e-176	G7KAA1_MEDTR; Auxin response factor, putative
STRING	AES98003	1e-177	(Medicago truncatula)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G77850.1	4e-57	auxin response factor 17

Link Out ? help Back to Top
Phytozome	Medtr5g062970.1
Entrez Gene	11423383

Publications ? help Back to Top
Young ND, et al. The Medicago genome provides insight into the evolution of rhizobial symbioses. Nature, 2011. 480(7378): p. 520-4 [PMID:22089132] Shi ZH, et al. Overexpression of AtTTP affects ARF17 expression and leads to male sterility in Arabidopsis. PLoS ONE, 2015. 10(3): p. e0117317 [PMID:25822980] de Lucas M, et al. Transcriptional Regulation of Arabidopsis Polycomb Repressive Complex 2 Coordinates Cell-Type Proliferation and Differentiation. Plant Cell, 2016. 28(10): p. 2616-2631 [PMID:27650334] 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] Wang B, et al. Fine regulation of ARF17 for anther development and pollen formation. BMC Plant Biol., 2017. 17(1): p. 243 [PMID:29258431] 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]