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

OBART05G25790.5

Organism

Oryza barthii

Taxonomic ID

65489

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

ARF

Protein Properties

Length: 669aa MW: 73893.9 Da PI: 7.013

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OBART05G25790.5	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	78.1	9.5e-25	99	200	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++ + +++ s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv+ ++L +gD v+F + + OBART05G25790.5 99 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyS-QQRPSQELVAKDLHGTEWRFRHIYRGQPRRHLLTTGWSAFVNKKKLVSGDAVLFL--RGD 189 99**************************963.3445679********************************************..348 PP EE..EEEEE-S CS B3 89 efelvvkvfrk 99 ++el+++v+r+ OBART05G25790.5 190 DGELRLGVRRA 200 9999*9996 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	7.7E-41	92	202	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	2.35E-43	93	215	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	4.53E-23	97	199	No hit	No description
Pfam	PF02362	1.2E-22	99	200	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	13.493	99	201	IPR003340	B3 DNA binding domain
SMART	SM01019	5.3E-23	99	201	IPR003340	B3 DNA binding domain
Pfam	PF06507	3.7E-31	225	305	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:0009734	Biological Process	auxin-activated signaling pathway
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 669 aa Download sequence Send to blast
MTGIDLNTVE EDEEEAAEEV AANGSSPAPA RAGAVCLELW HACCRVVDVT LLADAATDEV 60 YAQLSLVPEK EEVARRADDG EGEDGDGMKQ RFARMPHMFC KTLTASDTST HGGFSVPRRA 120 AEDCFPPLDY SQQRPSQELV AKDLHGTEWR FRHIYRGQPR RHLLTTGWSA FVNKKKLVSG 180 DAVLFLRGDD GELRLGVRRA AQLKNGSAFP ALYNQCSNLG TLANVAHAVA TESVFNIYYN 240 PRLSQSEFIV PYWKFMKSLS QPFSVGLRFK MRYESEDATE RRYTGIITGS GDTDPMWHGS 300 KWKCLLVRWD DDAEFRRPNR VSPWEIELTS SVSGSHLSTP HSKRLKPCLP HVNPEYMVPR 360 GGVCPDFAES AQFHKVLQGQ ELLGFKSHGG TAAATSQPCE ARHLQYIDER SCSSDASNSI 420 LGVPRLGDRA PLGNPGFSYH CSGFGESQRL QKVLQGQELF RPYRGTLVDA SMGSNGFHQQ 480 DSPRAPGVVN KWQAQLHGRA AFHGPPAPAL PSQSSSPPSV LMFQQANSKM PRLEFGHGQL 540 DKHENDRRVR FGPSEGIERR EQRIPLQPYP TSGEVIDGQV TVEKSHSPGR HGKDGPDNKA 600 VGTNSCKIFG ISLTEKVPAR EELDDGDANY SLQSLKQVPK SLGNSCATVH EQRPVVGRVI 660 DISTMDMMI

Sequence ? help Back to Top

Protein Sequence Length: 669 aa Download sequence Send to blast

MTGIDLNTVE EDEEEAAEEV AANGSSPAPA RAGAVCLELW HACCRVVDVT LLADAATDEV  60
YAQLSLVPEK EEVARRADDG EGEDGDGMKQ RFARMPHMFC KTLTASDTST HGGFSVPRRA  120
AEDCFPPLDY SQQRPSQELV AKDLHGTEWR FRHIYRGQPR RHLLTTGWSA FVNKKKLVSG  180
DAVLFLRGDD GELRLGVRRA AQLKNGSAFP ALYNQCSNLG TLANVAHAVA TESVFNIYYN  240
PRLSQSEFIV PYWKFMKSLS QPFSVGLRFK MRYESEDATE RRYTGIITGS GDTDPMWHGS  300
KWKCLLVRWD DDAEFRRPNR VSPWEIELTS SVSGSHLSTP HSKRLKPCLP HVNPEYMVPR  360
GGVCPDFAES AQFHKVLQGQ ELLGFKSHGG TAAATSQPCE ARHLQYIDER SCSSDASNSI  420
LGVPRLGDRA PLGNPGFSYH CSGFGESQRL QKVLQGQELF RPYRGTLVDA SMGSNGFHQQ  480
DSPRAPGVVN KWQAQLHGRA AFHGPPAPAL PSQSSSPPSV LMFQQANSKM PRLEFGHGQL  540
DKHENDRRVR FGPSEGIERR EQRIPLQPYP TSGEVIDGQV TVEKSHSPGR HGKDGPDNKA  600
VGTNSCKIFG ISLTEKVPAR EELDDGDANY SLQSLKQVPK SLGNSCATVH EQRPVVGRVI  660
DISTMDMMI

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	1e-99	21	335	3	361	Auxin response factor 1
4ldw_A	1e-99	21	335	3	361	Auxin response factor 1
4ldw_B	1e-99	21	335	3	361	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).

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AB071290	0.0	AB071290.1 Oryza sativa OsETTIN1 mRNA for Arabidopsis ETTIN-like protein 1, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025881421.1	0.0	auxin response factor 15 isoform X1
Swissprot	Q8S985	0.0	ARFO_ORYSJ; Auxin response factor 15
TrEMBL	A0A0D3GAT6	0.0	A0A0D3GAT6_9ORYZ; Auxin response factor
STRING	OBART05G25790.2	0.0	(Oryza barthii)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G33860.1	1e-141	ARF family protein

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Cheng CH, et al. A fine physical map of the rice chromosome 5. Mol. Genet. Genomics, 2005. 274(4): p. 337-45 [PMID:16261349] Khanday I,Yadav SR,Vijayraghavan U Rice LHS1/OsMADS1 controls floret meristem specification by coordinated regulation of transcription factors and hormone signaling pathways. Plant Physiol., 2013. 161(4): p. 1970-83 [PMID:23449645]