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

OMERI07G01290.2

Organism

Oryza meridionalis

Taxonomic ID

40149

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: 436aa MW: 46813.6 Da PI: 6.4282

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OMERI07G01290.2	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	56.4	5.3e-18	262	308	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 hn ErrRRdriN+++ L+el+P++ K +Ka+iL +A+eY+ksLq OMERI07G01290.2 262 VHNLSERRRRDRINEKLRALQELVPHC-----NKTDKASILDEAIEYLKSLQ 308 6***********************8.....6****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	1.37E-16	254	312	No hit	No description
SuperFamily	SSF47459	3.14E-21	256	320	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	18.768	258	307	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.7E-21	262	316	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	2.4E-15	262	308	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.6E-17	264	313	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 436 aa Download sequence Send to blast
MLRTHISPCF LATLTSSPRA RGARRTSVTC RLSKNCGAMD AGATARSSSS AMMMMNQKKP 60 LLSDGELVEL LWQDGGVVAH AQTRHRSPGL LARSGVTGEE ETASAWFADG GGGDDALGVG 120 MGRDIYSQFW HSFANVDGHA AGALALATPT PTPRAAARKD DVSSRLDEAG LSICGSNAVA 180 APALPADDDD DDIDAAAPRE EEEEGTGAAR AGGASSSGGS GSGSYPLFKR GRDELDSLSE 240 VADETRPSKR PAAKRRTRAA EVHNLSERRR RDRINEKLRA LQELVPHCNK TDKASILDEA 300 IEYLKSLQMQ IQIMWMTTGI APMMFPGAHQ LMPPMGMGLN TACMPGAQAQ GLNQMQRTTY 360 YMNNSLPNQM PQIPSPVMSA PNVPNDMQSD NRIRGPRNPF LHCNDTLTAT AQVPVTNMQA 420 TRGDEQRKAE QLVLEE

Sequence ? help Back to Top

Protein Sequence Length: 436 aa Download sequence Send to blast

MLRTHISPCF LATLTSSPRA RGARRTSVTC RLSKNCGAMD AGATARSSSS AMMMMNQKKP  60
LLSDGELVEL LWQDGGVVAH AQTRHRSPGL LARSGVTGEE ETASAWFADG GGGDDALGVG  120
MGRDIYSQFW HSFANVDGHA AGALALATPT PTPRAAARKD DVSSRLDEAG LSICGSNAVA  180
APALPADDDD DDIDAAAPRE EEEEGTGAAR AGGASSSGGS GSGSYPLFKR GRDELDSLSE  240
VADETRPSKR PAAKRRTRAA EVHNLSERRR RDRINEKLRA LQELVPHCNK TDKASILDEA  300
IEYLKSLQMQ IQIMWMTTGI APMMFPGAHQ LMPPMGMGLN TACMPGAQAQ GLNQMQRTTY  360
YMNNSLPNQM PQIPSPVMSA PNVPNDMQSD NRIRGPRNPF LHCNDTLTAT AQVPVTNMQA  420
TRGDEQRKAE QLVLEE

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	253	270	KRRTRAAEVHNLSERRRR
2	266	271	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}.

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	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	JN400276	0.0	JN400276.1 Oryza sativa Japonica Group rice phytochrome-interacting factor 4 (PIF4) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015648043.1	0.0	transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13-like isoform X1
Refseq	XP_015648044.1	0.0	transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13-like isoform X1
Refseq	XP_015648045.1	0.0	transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13-like isoform X1
Swissprot	Q10CH5	4e-83	PIL13_ORYSJ; Transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13
TrEMBL	A0A0E0E792	0.0	A0A0E0E792_9ORYZ; Uncharacterized protein
STRING	OMERI07G01350.1	0.0	(Oryza meridionalis)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G09530.2	7e-28	phytochrome interacting factor 3

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]