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

OBART01G26040.1

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: 74159.1 Da PI: 7.2177

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OBART01G26040.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	75.5	6.2e-24	87	188	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++F + ++L +gD v+F + + OBART01G26040.1 87 FCKTLTASDTSTHGGFSVPRRAAEDCfppldySLQRP-SQELVAKDLHGTEWRFRHIYRGQPRRHLLTTGWSGFINKKKLVSGDAVLFL--RGE 177 99**************************9966654.569********************************************..449 PP EE..EEEEE-S CS B3 89 efelvvkvfrk 99 ++el+++v+r+ OBART01G26040.1 178 DGELRLGVRRA 188 999***996 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	2.3E-39	79	192	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	2.09E-43	84	224	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	5.60E-22	85	187	No hit	No description
Pfam	PF02362	6.5E-22	87	188	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	13.281	87	189	IPR003340	B3 DNA binding domain
SMART	SM01019	1.4E-22	87	189	IPR003340	B3 DNA binding domain
Pfam	PF06507	1.6E-29	213	293	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
MVGIDLNTVE EEEDEEEGGA TGTVTAPAEA RAGAAADAAT DEVYAQVSLV ADNEEVERRM 60 REGEDGAACD GEGEDAVKRP ARIPHMFCKT LTASDTSTHG GFSVPRRAAE DCFPPLDYSL 120 QRPSQELVAK DLHGTEWRFR HIYRGQPRRH LLTTGWSGFI NKKKLVSGDA VLFLRGEDGE 180 LRLGVRRAAQ LKNASPFPAL HNQISNTSSL SEVAHAVAVK SIFHIYYNPR LSQSEFIIPY 240 WKFMRSFSQP FSVGMRFKLR YESEDASERR RTGIIIGSRE ADPMWHGSKW KCLVVKWDDD 300 VECRRPNGVS PWEIELSGSV SGSHLSTPHS KRLKSCFPQV NPDIVLPNGS VSSDFAESAR 360 FHKVLQGQEL LGLKTRDGTV NTASQATEAR NFQYTDERSC SINMSNNILG VPRLGVKTPS 420 GNPGFSYHCS GFGESQRFQE VLQGQEVFRP YRGGTLSDAC IRGSGFRQPD GNHAPGAAFK 480 WLAPQGCDHH GITTSVLPQA SSPSSVLMFP QTSSKMPGLE YIYGCLDRNE NSRHFKIGPT 540 QDMTRTDQTL RLWPHLISGK MLDECTRNEK LHSPVGGAEH ESNNKCLNTN GCKIFGISLT 600 EKAQAGDEVD CGNASYHSRL QSLKPQMPKS LGSSCATHFH RLCYRIQDDD RGNADDARRM 660 LVKFVVMHF

Sequence ? help Back to Top

Protein Sequence Length: 669 aa Download sequence Send to blast

MVGIDLNTVE EEEDEEEGGA TGTVTAPAEA RAGAAADAAT DEVYAQVSLV ADNEEVERRM  60
REGEDGAACD GEGEDAVKRP ARIPHMFCKT LTASDTSTHG GFSVPRRAAE DCFPPLDYSL  120
QRPSQELVAK DLHGTEWRFR HIYRGQPRRH LLTTGWSGFI NKKKLVSGDA VLFLRGEDGE  180
LRLGVRRAAQ LKNASPFPAL HNQISNTSSL SEVAHAVAVK SIFHIYYNPR LSQSEFIIPY  240
WKFMRSFSQP FSVGMRFKLR YESEDASERR RTGIIIGSRE ADPMWHGSKW KCLVVKWDDD  300
VECRRPNGVS PWEIELSGSV SGSHLSTPHS KRLKSCFPQV NPDIVLPNGS VSSDFAESAR  360
FHKVLQGQEL LGLKTRDGTV NTASQATEAR NFQYTDERSC SINMSNNILG VPRLGVKTPS  420
GNPGFSYHCS GFGESQRFQE VLQGQEVFRP YRGGTLSDAC IRGSGFRQPD GNHAPGAAFK  480
WLAPQGCDHH GITTSVLPQA SSPSSVLMFP QTSSKMPGLE YIYGCLDRNE NSRHFKIGPT  540
QDMTRTDQTL RLWPHLISGK MLDECTRNEK LHSPVGGAEH ESNNKCLNTN GCKIFGISLT  600
EKAQAGDEVD CGNASYHSRL QSLKPQMPKS LGSSCATHFH RLCYRIQDDD RGNADDARRM  660
LVKFVVMHF

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldy_A	2e-89	36	323	84	361	Auxin response factor 1
4ldy_B	2e-89	36	323	84	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 -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin under dark condition. {ECO:0000269\|PubMed:17408882}.

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	AB071291	0.0	AB071291.1 Oryza sativa OsETTIN2 mRNA for Arabidopsis ETTIN-like protein 2, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015647511.1	0.0	auxin response factor 2 isoform X2
Swissprot	Q0JKI9	0.0	ARFB_ORYSJ; Auxin response factor 2
TrEMBL	A0A0D3ESB6	0.0	A0A0D3ESB6_9ORYZ; Auxin response factor
STRING	OBART01G26040.1	0.0	(Oryza barthii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP2537	35	80

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G33860.1	1e-135	ARF family protein

Publications ? help Back to Top
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]