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

RrC1756_p1

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

NAC

Protein Properties

Length: 375aa MW: 42297.5 Da PI: 6.0184

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC1756_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	56.6	8.9e-18	32	78	1	48
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLp 48 l+pGfrFhPtdeelv++yLk+kv gk++++ ++i ++diyk+ePwdL RrC1756_p1 32 LAPGFRFHPTDEELVSYYLKRKVLGKPVRF-DAIGDADIYKYEPWDLA 78 579**********************999.99************7 PP
2	NAM	94.8	1.3e-29	130	207	50	128
NAM 50 kvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkevlskkgelvglkktLvfykgrapkgektdWvmheyrl 128 ++k++++ew+f++ dkky +g r nr+t+ gyWkatg+d+e+ + + +l g+kktLvf++grap+g +t+Wvmheyrl RrC1756_p1 130 RLKTRDQEWFFYCALDKKYGNGARMNRSTNIGYWKATGRDREIRR-DVQLLGMKKTLVFHSGRAPDGLRTNWVMHEYRL 207 5678999***********************************9.999**************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	1.07E-18	24	81	IPR003441	NAC domain
PROSITE profile	PS51005	48.242	32	231	IPR003441	NAC domain
Pfam	PF02365	5.8E-25	34	207	IPR003441	NAC domain
SuperFamily	SSF101941	1.7E-34	126	232	IPR003441	NAC domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 375 aa Download sequence Send to blast
MGPDSVAAVE SSPSSSATAP PSTATAVAAT ALAPGFRFHP TDEELVSYYL KRKVLGKPVR 60 FDAIGDADIY KYEPWDLAGN EVCCSCYVFG YLKVLSLSAP CVFLIPYGFL AKLVLPLWFA 120 SVSGHEMFSR LKTRDQEWFF YCALDKKYGN GARMNRSTNI GYWKATGRDR EIRRDVQLLG 180 MKKTLVFHSG RAPDGLRTNW VMHEYRLLDY ETESNGNLVQ DAYVLVKVFH KNNIGPPCGN 240 RYAPFMEEEW ADDGVALIPG VVRAEPLPLP NGNHQMDQSE SKELININEP PREVTPMDIE 300 VNHHNQQLDN ALKPQENNNS NNHCDEDEKA LKRENAEEDE RPPPACAPSP LLQYKRRRQN 360 ESNSKDSSRT TTQDH

Sequence ? help Back to Top

Protein Sequence Length: 375 aa Download sequence Send to blast

MGPDSVAAVE SSPSSSATAP PSTATAVAAT ALAPGFRFHP TDEELVSYYL KRKVLGKPVR  60
FDAIGDADIY KYEPWDLAGN EVCCSCYVFG YLKVLSLSAP CVFLIPYGFL AKLVLPLWFA  120
SVSGHEMFSR LKTRDQEWFF YCALDKKYGN GARMNRSTNI GYWKATGRDR EIRRDVQLLG  180
MKKTLVFHSG RAPDGLRTNW VMHEYRLLDY ETESNGNLVQ DAYVLVKVFH KNNIGPPCGN  240
RYAPFMEEEW ADDGVALIPG VVRAEPLPLP NGNHQMDQSE SKELININEP PREVTPMDIE  300
VNHHNQQLDN ALKPQENNNS NNHCDEDEKA LKRENAEEDE RPPPACAPSP LLQYKRRRQN  360
ESNSKDSSRT TTQDH

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ut4_A	1e-35	27	233	12	167	NO APICAL MERISTEM PROTEIN
1ut4_B	1e-35	27	233	12	167	NO APICAL MERISTEM PROTEIN
1ut7_A	1e-35	27	233	12	167	NO APICAL MERISTEM PROTEIN
1ut7_B	1e-35	27	233	12	167	NO APICAL MERISTEM PROTEIN
3swm_A	2e-35	27	233	15	170	NAC domain-containing protein 19
3swm_B	2e-35	27	233	15	170	NAC domain-containing protein 19
3swm_C	2e-35	27	233	15	170	NAC domain-containing protein 19
3swm_D	2e-35	27	233	15	170	NAC domain-containing protein 19
3swp_A	2e-35	27	233	15	170	NAC domain-containing protein 19
3swp_B	2e-35	27	233	15	170	NAC domain-containing protein 19
3swp_C	2e-35	27	233	15	170	NAC domain-containing protein 19
3swp_D	2e-35	27	233	15	170	NAC domain-containing protein 19
4dul_A	1e-35	27	233	12	167	NAC domain-containing protein 19
4dul_B	1e-35	27	233	12	167	NAC domain-containing protein 19
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional repressor that binds to the motif 5'-(C/T)A(C/A)G-3' in the promoter of target genes (PubMed:25578968). Binds also to the 5'-CTTGNNNNNCAAG-3' consensus sequence in chromatin (PubMed:26617990). Can bind to the mitochondrial dysfunction motif (MDM) present in the upstream regions of mitochondrial dysfunction stimulon (MDS) genes involved in mitochondrial retrograde regulation (MRR) (PubMed:24045019). Together with NAC051/NAC052 and JMJ14, regulates gene expression and flowering time by associating with the histone demethylase JMJ14, probably by the promotion of RNA-mediated gene silencing (PubMed:25578968, PubMed:26617990). {ECO:0000269\|PubMed:24045019, ECO:0000269\|PubMed:25578968, ECO:0000269\|PubMed:26617990}.

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	KC966752	1e-145	KC966752.1 Brassica napus NAC transcription factor 50 (NAC50.1) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018492855.1	0.0	PREDICTED: NAC domain-containing protein 7-like
Swissprot	Q9SQX9	1e-163	NAC50_ARATH; NAC domain containing protein 50
TrEMBL	A0A3P6FBP6	0.0	A0A3P6FBP6_BRAOL; Uncharacterized protein
STRING	Bo5g137360.1	1e-180	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1780	28	80

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G10480.1	1e-153	NAC domain containing protein 50

Publications ? help Back to Top
Zhang S, et al. C-terminal domains of a histone demethylase interact with a pair of transcription factors and mediate specific chromatin association. Cell Discov, 2019. [PMID:26617990]