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

Oropetium_20150105_03890A

Organism

Oropetium thomaeum

Taxonomic ID

1148796

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Chloridoideae; Cynodonteae; Tripogoninae; Oropetium

Family

Protein Properties

Length: 667aa MW: 72207.6 Da PI: 7.8216

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Oropetium_20150105_03890A	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	32.8	1.2e-10	172	235	1	59
EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgry 59 f+k+lt sd++++g +++p++ ae++ + +++ s++l+ +d++g +W++++iyr++s ++ Oropetium_20150105_03890A 172 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyS-QQRPSQELVAKDLHGTEWRFRHIYRGTSTSI 235 99**************************963.3445679****************999875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	3.0E-23	164	243	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	7.46E-30	164	234	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	3.88E-10	170	234	No hit	No description
SMART	SM01019	0.0011	172	251	IPR003340	B3 DNA binding domain
Pfam	PF02362	8.0E-9	172	235	IPR003340	B3 DNA binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 667 aa Download sequence Send to blast
MTGXXXXXXX XXXXXXXXXX TASINSCSLS QQSRGSSTAT GTPPPQPRPG PGGAPVCLEL 60 WHACAGPVAP LPRKGSAVVY LPQGHLEHLA DAASGVLAAA VPPHVFCRVV DVTLHADAAT 120 DEVYAQLALL AENEEMARRS LRGGSDDGPG GGGGGDDADT MKQRFARMPH MFCKTLTASD 180 TSTHGGFSVP RRAAEDCFPP LDYSQQRPSQ ELVAKDLHGT EWRFRHIYRG TSTSILQGDD 240 GELRLGVRRA AQLKNGSAFP ALYNQCSDLG TLANVAHAVA TKSIFHIYYN PRYTGIITGV 300 SDAEPTWRAS KWKCLTVRWD DDVGVGQSNR VSPWEVELTG SVTGSHLSIP NSKRLKPCLP 360 HVNPDYLVPH GSGCSDFAES AQFHKVLQGQ ELLGYRTHNN TAVAASQQCE ARNMQYIDER 420 SCSNDVSNTI PGVPRLGARA LLGSPRFSYH CSGFGESQRF QKVLQGQEVL STFRGTQVDA 480 CMRTGGFRQQ HTPLVSSMAN KWHPQMQING CVYNGPPASM LPSQNSSPSS VLMFHPSIQK 540 MRHFEFGNSH LDKNGNDSHA MYGQTEGIGS TDQMFMHRPN NVSEEAVDGH LTVERLHSAI 600 GIGKDGSDER EVRTNSCKIF GISLAEKVPA RKEKDIGVGD ANYPSPFQSR KQQVPKSLGN 660 SCATGR*

Sequence ? help Back to Top

Protein Sequence Length: 667 aa Download sequence Send to blast

MTGXXXXXXX XXXXXXXXXX TASINSCSLS QQSRGSSTAT GTPPPQPRPG PGGAPVCLEL  60
WHACAGPVAP LPRKGSAVVY LPQGHLEHLA DAASGVLAAA VPPHVFCRVV DVTLHADAAT  120
DEVYAQLALL AENEEMARRS LRGGSDDGPG GGGGGDDADT MKQRFARMPH MFCKTLTASD  180
TSTHGGFSVP RRAAEDCFPP LDYSQQRPSQ ELVAKDLHGT EWRFRHIYRG TSTSILQGDD  240
GELRLGVRRA AQLKNGSAFP ALYNQCSDLG TLANVAHAVA TKSIFHIYYN PRYTGIITGV  300
SDAEPTWRAS KWKCLTVRWD DDVGVGQSNR VSPWEVELTG SVTGSHLSIP NSKRLKPCLP  360
HVNPDYLVPH GSGCSDFAES AQFHKVLQGQ ELLGYRTHNN TAVAASQQCE ARNMQYIDER  420
SCSNDVSNTI PGVPRLGARA LLGSPRFSYH CSGFGESQRF QKVLQGQEVL STFRGTQVDA  480
CMRTGGFRQQ HTPLVSSMAN KWHPQMQING CVYNGPPASM LPSQNSSPSS VLMFHPSIQK  540
MRHFEFGNSH LDKNGNDSHA MYGQTEGIGS TDQMFMHRPN NVSEEAVDGH LTVERLHSAI  600
GIGKDGSDER EVRTNSCKIF GISLAEKVPA RKEKDIGVGD ANYPSPFQSR KQQVPKSLGN  660
SCATGR*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	2e-65	51	345	11	361	Auxin response factor 1
4ldw_A	2e-65	51	345	11	361	Auxin response factor 1
4ldw_B	2e-65	51	345	11	361	Auxin response factor 1
4ldx_A	3e-65	51	345	11	361	Auxin response factor 1
4ldx_B	3e-65	51	345	11	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).

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Oropetium_20150105_03890A

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025807170.1	0.0	auxin response factor 15-like
Swissprot	Q8S985	0.0	ARFO_ORYSJ; Auxin response factor 15
TrEMBL	A0A1D8F0K6	0.0	A0A1D8F0K6_9POAL; Auxin response factor
STRING	Pavir.J08401.1.p	0.0	(Panicum virgatum)

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-111	ARF family protein

Link Out ? help Back to Top
Phytozome	Oropetium_20150105_03890A

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]