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

RrC4562_p2

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus

Family

Nin-like

Protein Properties

Length: 962aa MW: 106135 Da PI: 5.4593

Description

Nin-like family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC4562_p2	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	RWP-RK	91.8	5e-29	589	639	2	52
RWP-RK 2 ekeisledlskyFslpikdAAkeLgvclTvLKriCRqyGIkRWPhRkiksl 52 ek+isl++l++yF +++kdAAk+Lgvc+T++KriCRq+GI+RWP+Rkik++ RrC4562_p2 589 EKTISLDVLQQYFTGSLKDAAKSLGVCPTTMKRICRQHGISRWPSRKIKKV 639 799**********************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF55781	4.41E-5	215	283	IPR029016	GAF domain-like
PROSITE profile	PS51519	17.393	578	659	IPR003035	RWP-RK domain
Pfam	PF02042	7.3E-26	591	639	IPR003035	RWP-RK domain
SuperFamily	SSF54277	1.57E-23	859	950	No hit	No description
Gene3D	G3DSA:3.10.20.240	6.5E-27	866	948	No hit	No description
PROSITE profile	PS51745	28.012	866	948	IPR000270	PB1 domain
SMART	SM00666	5.2E-29	866	948	IPR000270	PB1 domain
Pfam	PF00564	3.4E-20	866	947	IPR000270	PB1 domain
CDD	cd06407	5.66E-35	867	947	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009414	Biological Process	response to water deprivation
GO:0010118	Biological Process	stomatal movement
GO:0010167	Biological Process	response to nitrate
GO:0042128	Biological Process	nitrate assimilation
GO:0005634	Cellular Component	nucleus
GO:0005515	Molecular Function	protein binding

Sequence ? help Back to Top
Protein Sequence Length: 962 aa Download sequence Send to blast
MCEPDDNTTA RNGVTPPPSR SRELLMDVDD LDLDGSWPLD QIPYLSSSNR MISPIFVSSS 60 SEQPCSPLWA FSDAVGGTVN HGGEDEKISS VSGVPSFRLS DYPLFLPYSS SPSVVAENTT 120 EKHNGFQFPS PLMSLVPPEN TDNYCVIKER MTQALRYFKE STEQHVLAQV WAPVRKNGRD 180 LLTTLGQPFV LNPNGNGLNQ YRMISLTYMF SVDSESDFEL GLPGRVFRQK LPEWTPNVQY 240 YSSKEFSRLD HALHYNVRGT LALPVFNPSG ESCIGVVELI MTSEKIHYAP EVDRVCKALE 300 AVNLKSSEIL DHQTTQICNE SRQNALAEIL EVLTVVCETH NLPLAQTWVP CQHGSVLANG 360 GGLKKNCTSF DGSCMGQVCM STTDMACYVV DAHVWGFRDA CLEHHLQKGQ GVAGRAFLNG 420 GSCFCRDITK FCKTQYPLVH YALMFKLTTC FAISLQSSYT GDDSYILEFF LPSSITDNQE 480 QDSLLGSLLV TMKEHFQSLR VASGVDFGED DDKLSFEIIE ALPDKKIHSQ IESIRVPFSG 540 FKSNATETLL IPQPAVPSSD HVNGKTNVAP VNGVVKEKKK TEKKRGKTEK TISLDVLQQY 600 FTGSLKDAAK SLGVCPTTMK RICRQHGISR WPSRKIKKVN RSITKLKRVI ESVQCTDGGL 660 DLTSMAVSSI PWTHGQTAAQ QLNSPSGSKP PELPTTNNSP NHWSNEHSPP EPNGSPELPS 720 NGHKRSRTAD ESAGTPTSHG SCDGNGNQLD ETKVPSQDPL FTVGGGPPGL FFPPYSRDHD 780 VSAASFAMPN RLLGTIDHFR GMPIEDAGSS KDLRNLCSTA AFEDKFPDSN WMNNDNNSNN 840 NMYVPPKEEE VANITREPPS ESEMRTVTIK ASYKEDIIRF RIPSGSGITE LKDEVAKRLR 900 IDAGTFDIKY LDDDNEWVLI ACDADLQECL EIPRSSRTNI VRLLVHDVTA NLGSSCESTG 960 EL

Sequence ? help Back to Top

Protein Sequence Length: 962 aa Download sequence Send to blast

MCEPDDNTTA RNGVTPPPSR SRELLMDVDD LDLDGSWPLD QIPYLSSSNR MISPIFVSSS  60
SEQPCSPLWA FSDAVGGTVN HGGEDEKISS VSGVPSFRLS DYPLFLPYSS SPSVVAENTT  120
EKHNGFQFPS PLMSLVPPEN TDNYCVIKER MTQALRYFKE STEQHVLAQV WAPVRKNGRD  180
LLTTLGQPFV LNPNGNGLNQ YRMISLTYMF SVDSESDFEL GLPGRVFRQK LPEWTPNVQY  240
YSSKEFSRLD HALHYNVRGT LALPVFNPSG ESCIGVVELI MTSEKIHYAP EVDRVCKALE  300
AVNLKSSEIL DHQTTQICNE SRQNALAEIL EVLTVVCETH NLPLAQTWVP CQHGSVLANG  360
GGLKKNCTSF DGSCMGQVCM STTDMACYVV DAHVWGFRDA CLEHHLQKGQ GVAGRAFLNG  420
GSCFCRDITK FCKTQYPLVH YALMFKLTTC FAISLQSSYT GDDSYILEFF LPSSITDNQE  480
QDSLLGSLLV TMKEHFQSLR VASGVDFGED DDKLSFEIIE ALPDKKIHSQ IESIRVPFSG  540
FKSNATETLL IPQPAVPSSD HVNGKTNVAP VNGVVKEKKK TEKKRGKTEK TISLDVLQQY  600
FTGSLKDAAK SLGVCPTTMK RICRQHGISR WPSRKIKKVN RSITKLKRVI ESVQCTDGGL  660
DLTSMAVSSI PWTHGQTAAQ QLNSPSGSKP PELPTTNNSP NHWSNEHSPP EPNGSPELPS  720
NGHKRSRTAD ESAGTPTSHG SCDGNGNQLD ETKVPSQDPL FTVGGGPPGL FFPPYSRDHD  780
VSAASFAMPN RLLGTIDHFR GMPIEDAGSS KDLRNLCSTA AFEDKFPDSN WMNNDNNSNN  840
NMYVPPKEEE VANITREPPS ESEMRTVTIK ASYKEDIIRF RIPSGSGITE LKDEVAKRLR  900
IDAGTFDIKY LDDDNEWVLI ACDADLQECL EIPRSSRTNI VRLLVHDVTA NLGSSCESTG  960
EL

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor involved in regulation of nitrate assimilation and in transduction of the nitrate signal. {ECO:0000269\|PubMed:18826430}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00449	DAP	Transfer from AT4G24020	Download

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Not regulated by the N source or by nitrate. {ECO:0000269\|PubMed:18826430}.

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	AK228452	0.0	AK228452.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL15-03-P13.
GenBank	BT005776	0.0	BT005776.1 Arabidopsis thaliana clone RAFL15-03-P13 (R20174) unknown protein (At4g24020) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018469935.1	0.0	PREDICTED: protein NLP7
Swissprot	Q84TH9	0.0	NLP7_ARATH; Protein NLP7
TrEMBL	M4DB94	0.0	M4DB94_BRARP; Uncharacterized protein
STRING	Bra013754.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2507	26	66

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G24020.1	0.0	NIN like protein 7

Publications ? help Back to Top
Xu N, et al. The Arabidopsis NRG2 Protein Mediates Nitrate Signaling and Interacts with and Regulates Key Nitrate Regulators. Plant Cell, 2016. 28(2): p. 485-504 [PMID:26744214] Karve R,Suárez-Román F,Iyer-Pascuzzi AS The Transcription Factor NIN-LIKE PROTEIN7 Controls Border-Like Cell Release. Plant Physiol., 2016. 171(3): p. 2101-11 [PMID:27221617] Yu LH, et al. Overexpression of Arabidopsis NLP7 improves plant growth under both nitrogen-limiting and -sufficient conditions by enhancing nitrogen and carbon assimilation. Sci Rep, 2016. 6: p. 27795 [PMID:27293103] Menz J,Li Z,Schulze WX,Ludewig U Early nitrogen-deprivation responses in Arabidopsis roots reveal distinct differences on transcriptome and (phospho-) proteome levels between nitrate and ammonium nutrition. Plant J., 2016. 88(5): p. 717-734 [PMID:27419465] Yan D, et al. NIN-like protein 8 is a master regulator of nitrate-promoted seed germination in Arabidopsis. Nat Commun, 2016. 7: p. 13179 [PMID:27731416] Guan P, et al. Interacting TCP and NLP transcription factors control plant responses to nitrate availability. Proc. Natl. Acad. Sci. U.S.A., 2017. 114(9): p. 2419-2424 [PMID:28202720] Liu KH, et al. Discovery of nitrate-CPK-NLP signalling in central nutrient-growth networks. Nature, 2017. 545(7654): p. 311-316 [PMID:28489820] Li Z, et al. The Arabidopsis CPSF30-L gene plays an essential role in nitrate signaling and regulates the nitrate transceptor gene NRT1.1. New Phytol., 2017. 216(4): p. 1205-1222 [PMID:28850721] Cao H, et al. Overexpression of the Maize ZmNLP6 and ZmNLP8 Can Complement the Arabidopsis Nitrate Regulatory Mutant nlp7 by Restoring Nitrate Signaling and Assimilation. Front Plant Sci, 2017. 8: p. 1703 [PMID:29051766] Konishi N,Okubo T,Yamaya T,Hayakawa T,Minamisawa K Nitrate Supply-Dependent Shifts in Communities of Root-Associated Bacteria in Arabidopsis. Microbes Environ., 2017. 32(4): p. 314-323 [PMID:29187692] Karve RA,Iyer-Pascuzzi AS Further insights into the role of NIN-LIKE PROTEIN 7 (NLP7) in root cap cell release. Plant Signal Behav, 2018. 13(1): p. e1414122 [PMID:29215953] Zhao L, et al. The Arabidopsis NLP7 gene regulates nitrate signaling via NRT1.1-dependent pathway in the presence of ammonium. Sci Rep, 2018. 8(1): p. 1487 [PMID:29367694]