PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

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

Family

ARF

Protein Properties

Length: 1213aa MW: 131514 Da PI: 8.3074

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
LPERR08G17530.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	69.7	3.8e-22	133	234	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++ +++++++ +l+ +d++ + W++++iyr++++r++lt+GW+ Fv+ ++L +gD+v+F ++ LPERR08G17530.1 133 FCKTLTASDTSTHGGFSVPRRAAERIfprldfSLQPPCQ-ELQARDLHDNIWTFRHIYRGQPKRHLLTTGWSLFVSGKRLLAGDSVLFI--RDA 223 99****************************9999986.***********************************************..456 PP EE..EEEEE-S CS B3 89 efelvvkvfrk 99 +++l+++++r+ LPERR08G17530.1 224 KQQLLLGIRRA 234 77789999997 PP
2	Auxin_resp	116.8	1.8e-38	259	342	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aahaa+++s F+++YnPras+seFv++++k++ka++ +++s+GmRf+m+fete+ +rr++Gt++g+sdldpvrW+ S+Wr+L+ LPERR08G17530.1 259 AAHAAANNSQFTIYYNPRASPSEFVIPFAKYQKAVYgNQLSLGMRFRMMFETEETGTRRYMGTITGISDLDPVRWKTSHWRNLQ 342 79********************************9*******************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	4.97E-42	122	262	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	7.0E-39	125	248	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.66E-18	132	222	No hit	No description
Pfam	PF02362	3.4E-20	133	234	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.321	133	235	IPR003340	B3 DNA binding domain
SMART	SM01019	4.6E-20	133	235	IPR003340	B3 DNA binding domain
Pfam	PF06507	3.1E-33	259	342	IPR010525	Auxin response factor
Pfam	PF02309	1.8E-5	843	922	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	20.335	853	936	IPR000270	PB1 domain

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
GO:0005515	Molecular Function	protein binding

Sequence ? help Back to Top
Protein Sequence Length: 1213 aa Download sequence Send to blast
MAATASSGGG GEEGEGRGTT AKVNQELWYA CAGPLVSLPP QGSLVVYFPQ GHSEQVAASM 60 RRDADAQIPS YPNLPSKLIC ILHSVTMHAD PDTDEVYARM TLQPVSNVTQ CDKEILLASE 120 LALKQTKPQT EFFCKTLTAS DTSTHGGFSV PRRAAERIFP RLDFSLQPPC QELQARDLHD 180 NIWTFRHIYR GQPKRHLLTT GWSLFVSGKR LLAGDSVLFI RDAKQQLLLG IRRANRQPTN 240 LSSSVLSSDS MHIGILAAAA HAAANNSQFT IYYNPRASPS EFVIPFAKYQ KAVYGNQLSL 300 GMRFRMMFET EETGTRRYMG TITGISDLDP VRWKTSHWRN LQVAWDEAAP SERRTRVSLW 360 EIEPIIAPFF IYPSPMFTAK RPRLPGMAVP GLNLAQWMSM QHNSSLPGTV VQPELLNSLS 420 GKPIQNLAAA DLSRQISFHP QFLQQNSIQF NASLVPQQNQ QTEQLAKVIA TQNQLGSSII 480 PQKVVQDCNS EQRQNVVTQQ VQGSQSNISI TQPQLVVQAQ LQQPQPQQPL ISEQQKMLLD 540 LQQQMMNSQS APQQCVQVNQ AISLHNSNTV QYPTQQKVQS HQQVQDFTGN AIPNAKPDVV 600 TSIGPSSLHT AGGLQLLKTD DVPSSSTSPS TNSSPVLLQS IPSSSKNQSL ATAGKTSQSS 660 VVLGPTIEQD TKPYQSVKQT MIIPKVTEQR PATRQDCINN NTQMDYLDTS SSATSVCLSQ 720 ADGSLQQNFP PPSFNQHHLL KDAIPVSDFE VTDPRNNLLF GVSIDGQLGL PLSADLLAND 780 IETDKYMDQL PGNGISNYIS SKDSQQELSS SMISHSFGVA DMAFNSIDSA VNDTTFLNRN 840 SRSAAGPAHQ RMRTYTKVHK RGAVGRSIDI NRYSGYDELK RDVARMFGIE GQLGDQNRVG 900 WKLVYEDHEK DVLLVGDDPW EILSPQEEMQ MRLVGDFGDS FLPNQACSSS DGGHPWRITG 960 DIVDNGRMVA SKTAETRSSS SSAAASRSRS ARTTASSPSF PSNPSAPHLS LYVSWVALST 1020 TANARRATSS GVIIIHVLTG VDSMASRMAA VSAAASGSTT TRSTPLAARH LRWLSARRRA 1080 REATSAASRR RASHHAACRD SAASSGDPVP ANTARALLRS ATQGAMASAI VPAALSAPDA 1140 HCICSGVGSG LERYLVPTEE CVVRSCSVSS SSASSSGPQF ITASISSCIS SSMSTTAGGG 1200 VLLLQHMIVS ICK

Sequence ? help Back to Top

Protein Sequence Length: 1213 aa Download sequence Send to blast

MAATASSGGG GEEGEGRGTT AKVNQELWYA CAGPLVSLPP QGSLVVYFPQ GHSEQVAASM  60
RRDADAQIPS YPNLPSKLIC ILHSVTMHAD PDTDEVYARM TLQPVSNVTQ CDKEILLASE  120
LALKQTKPQT EFFCKTLTAS DTSTHGGFSV PRRAAERIFP RLDFSLQPPC QELQARDLHD  180
NIWTFRHIYR GQPKRHLLTT GWSLFVSGKR LLAGDSVLFI RDAKQQLLLG IRRANRQPTN  240
LSSSVLSSDS MHIGILAAAA HAAANNSQFT IYYNPRASPS EFVIPFAKYQ KAVYGNQLSL  300
GMRFRMMFET EETGTRRYMG TITGISDLDP VRWKTSHWRN LQVAWDEAAP SERRTRVSLW  360
EIEPIIAPFF IYPSPMFTAK RPRLPGMAVP GLNLAQWMSM QHNSSLPGTV VQPELLNSLS  420
GKPIQNLAAA DLSRQISFHP QFLQQNSIQF NASLVPQQNQ QTEQLAKVIA TQNQLGSSII  480
PQKVVQDCNS EQRQNVVTQQ VQGSQSNISI TQPQLVVQAQ LQQPQPQQPL ISEQQKMLLD  540
LQQQMMNSQS APQQCVQVNQ AISLHNSNTV QYPTQQKVQS HQQVQDFTGN AIPNAKPDVV  600
TSIGPSSLHT AGGLQLLKTD DVPSSSTSPS TNSSPVLLQS IPSSSKNQSL ATAGKTSQSS  660
VVLGPTIEQD TKPYQSVKQT MIIPKVTEQR PATRQDCINN NTQMDYLDTS SSATSVCLSQ  720
ADGSLQQNFP PPSFNQHHLL KDAIPVSDFE VTDPRNNLLF GVSIDGQLGL PLSADLLAND  780
IETDKYMDQL PGNGISNYIS SKDSQQELSS SMISHSFGVA DMAFNSIDSA VNDTTFLNRN  840
SRSAAGPAHQ RMRTYTKVHK RGAVGRSIDI NRYSGYDELK RDVARMFGIE GQLGDQNRVG  900
WKLVYEDHEK DVLLVGDDPW EILSPQEEMQ MRLVGDFGDS FLPNQACSSS DGGHPWRITG  960
DIVDNGRMVA SKTAETRSSS SSAAASRSRS ARTTASSPSF PSNPSAPHLS LYVSWVALST  1020
TANARRATSS GVIIIHVLTG VDSMASRMAA VSAAASGSTT TRSTPLAARH LRWLSARRRA  1080
REATSAASRR RASHHAACRD SAASSGDPVP ANTARALLRS ATQGAMASAI VPAALSAPDA  1140
HCICSGVGSG LERYLVPTEE CVVRSCSVSS SSASSSGPQF ITASISSCIS SSMSTTAGGG  1200
VLLLQHMIVS ICK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-164	23	363	51	388	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).

Cis-element ? help Back to Top
Source	Link
PlantRegMap	LPERR08G17530.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin under dark condition. Down-regulated by auxin under light 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	AK111639	0.0	AK111639.1 Oryza sativa Japonica Group cDNA clone:J013122A07, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_023876353.1	0.0	auxin response factor 19-like
Swissprot	Q6YZW0	0.0	ARFU_ORYSJ; Auxin response factor 21
TrEMBL	A0A0D9X9V4	0.0	A0A0D9X9V4_9ORYZ; Auxin response factor
STRING	LPERR08G17530.1	0.0	(Leersia perrieri)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP1409	35	106

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G19220.1	0.0	auxin response factor 19

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]