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

ORUFI03G37840.5

Organism

Oryza rufipogon

Taxonomic ID

4529

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

bHLH

Protein Properties

Length: 550aa MW: 59234.3 Da PI: 7.2271

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
ORUFI03G37840.5	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	55.1	1.4e-17	340	386	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 hn ErrRRdriN+++ L+el+P++ K +Ka+iL +A+eY+ksLq ORUFI03G37840.5 340 VHNLSERRRRDRINEKMRALQELIPHC-----NKTDKASILDEAIEYLKSLQ 386 6***********************8.....6****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	4.22E-18	331	390	No hit	No description
SuperFamily	SSF47459	3.27E-21	334	401	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	18.635	336	385	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	6.2E-22	340	395	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	8.6E-15	340	386	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	6.2E-18	342	391	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0006783	Biological Process	heme biosynthetic process
GO:0009740	Biological Process	gibberellic acid mediated signaling pathway
GO:0009959	Biological Process	negative gravitropism
GO:0010100	Biological Process	negative regulation of photomorphogenesis
GO:0010161	Biological Process	red light signaling pathway
GO:0010187	Biological Process	negative regulation of seed germination
GO:0015995	Biological Process	chlorophyll biosynthetic process
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0010313	Molecular Function	phytochrome binding
GO:0042802	Molecular Function	identical protein binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 550 aa Download sequence Send to blast
MPNPSSLLAS PSPPHRNSSS SSSISIISTP ATIQPDAAHG PCSLLTTSKY ALRDTRGSKS 60 SYTRLCCCCT AAPKAEQEEE TLQQELLLFG LVQVVNFLGG HKNRGMDGNA RSAANQTKQI 120 VTDNELVELL WHNGGVVAQP QAAQARVVSS SGRGQSASVL TGDDTETAAW FPDTLDDALE 180 KDLYTQLWRS VTGDAFPAAA AAGPSSHHAP PPDLPPPAAR PPMRSGIGSS WTGDICSAFC 240 GSNHIPETAA QRCRDAGAAL PPERPRRSST HDGAGTSSSG GSGSNFGASG LPSESASAHK 300 RKGREDSDSR SEDAECEATE ETKSSSRRYG SKRRTRAAEV HNLSERRRRD RINEKMRALQ 360 ELIPHCNKTD KASILDEAIE YLKSLQMQVQ IMWMTTGMAP MMFPGAHQFM PPMAVGMNSA 420 CMPAAQGLSH MSRLPYMNHS MPNHIPLNSS PAMNPMNVAN QMQNIQLREA SNPFLHPDGW 480 QTVPPQVSGP YASGPQVAQQ NQIPKASAST DKEFNVGFAQ RVVFLEIAEN IDMMNRLHPY 540 CCYVSQSVSV

Sequence ? help Back to Top

Protein Sequence Length: 550 aa Download sequence Send to blast

MPNPSSLLAS PSPPHRNSSS SSSISIISTP ATIQPDAAHG PCSLLTTSKY ALRDTRGSKS  60
SYTRLCCCCT AAPKAEQEEE TLQQELLLFG LVQVVNFLGG HKNRGMDGNA RSAANQTKQI  120
VTDNELVELL WHNGGVVAQP QAAQARVVSS SGRGQSASVL TGDDTETAAW FPDTLDDALE  180
KDLYTQLWRS VTGDAFPAAA AAGPSSHHAP PPDLPPPAAR PPMRSGIGSS WTGDICSAFC  240
GSNHIPETAA QRCRDAGAAL PPERPRRSST HDGAGTSSSG GSGSNFGASG LPSESASAHK  300
RKGREDSDSR SEDAECEATE ETKSSSRRYG SKRRTRAAEV HNLSERRRRD RINEKMRALQ  360
ELIPHCNKTD KASILDEAIE YLKSLQMQVQ IMWMTTGMAP MMFPGAHQFM PPMAVGMNSA  420
CMPAAQGLSH MSRLPYMNHS MPNHIPLNSS PAMNPMNVAN QMQNIQLREA SNPFLHPDGW  480
QTVPPQVSGP YASGPQVAQQ NQIPKASAST DKEFNVGFAQ RVVFLEIAEN IDMMNRLHPY  540
CCYVSQSVSV

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	331	348	KRRTRAAEVHNLSERRRR
2	344	349	ERRRRD

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that may act as negative regulator of phyB-dependent light signal transduction (PubMed:17485859). Transcription activator that acts as positive regulator of internode elongation. May function via regulation of cell wall-related genes. May play a role in a drought-associated growth-restriction mechanism in response to drought stress (PubMed:22984180). {ECO:0000269\|PubMed:17485859, ECO:0000269\|PubMed:22984180}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00074	ChIP-chip	Transfer from AT2G20180	Download

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced by light in dark-grown etiolated seedlings (PubMed:17485859). Circadian oscillation under 12 h light/12 h dark cycle conditions, with peaks in the middle of the light period (PubMed:17485859, PubMed:22984180). Down-regulated by cold and drought stresses (PubMed:22984180). {ECO:0000269\|PubMed:17485859, ECO:0000269\|PubMed:22984180}.

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK105637	0.0	AK105637.1 Oryza sativa Japonica Group cDNA clone:001-200-E02, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015633322.1	0.0	transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13-like isoform X2
Swissprot	Q10CH5	0.0	PIL13_ORYSJ; Transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13
TrEMBL	A0A0E0P246	0.0	A0A0E0P246_ORYRU; Uncharacterized protein
STRING	ORUFI03G37840.5	0.0	(Oryza rufipogon)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP3174	34	82

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G59060.1	8e-32	phytochrome interacting factor 3-like 6

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] Nakamura Y,Kato T,Yamashino T,Murakami M,Mizuno T Characterization of a set of phytochrome-interacting factor-like bHLH proteins in Oryza sativa. Biosci. Biotechnol. Biochem., 2007. 71(5): p. 1183-91 [PMID:17485859] Zhao XL,Shi ZY,Peng LT,Shen GZ,Zhang JL An atypical HLH protein OsLF in rice regulates flowering time and interacts with OsPIL13 and OsPIL15. N Biotechnol, 2011. 28(6): p. 788-97 [PMID:21549224] Todaka D, et al. Rice phytochrome-interacting factor-like protein OsPIL1 functions as a key regulator of internode elongation and induces a morphological response to drought stress. Proc. Natl. Acad. Sci. U.S.A., 2012. 109(39): p. 15947-52 [PMID:22984180]