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

XP_009121975.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

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

Family

NAC

Protein Properties

Length: 225aa MW: 26100.8 Da PI: 8.5486

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009121975.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	151.7	3.4e-47	19	146	3	128
NAM 3 pGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLp..kkvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkevlsk 95 pGfrFhPtdeel+++yLk+kvegk++++ +vi+ev+iyk+eP+dL +++k++++ewyfF++ +k++++++ nratk+gyWk+tg dk+++++ XP_009121975.1 19 PGFRFHPTDEELITYYLKRKVEGKPMRF-DVIREVNIYKHEPSDLAelSRLKTKDQEWYFFCPLEKRQNSSTVINRATKEGYWKKTGDDKKIKRE 112 8***********************99.9***********8444899999**********************************99 PP NAM 96 .kgelvglkktLvfykgrapkgektdWvmheyrl 128 ++el+g+ ktLv+++gr+pkg++t+Wv+ eyrl XP_009121975.1 113 gDDELIGVVKTLVYHRGRSPKGNRTNWVLYEYRL 146 77888*************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	1.2E-51	16	164	IPR003441	NAC domain
PROSITE profile	PS51005	50.564	17	164	IPR003441	NAC domain
Pfam	PF02365	2.7E-26	19	146	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: 225 aa Download sequence Send to blast
MTDPVLPAPV TASGKPIGPG FRFHPTDEEL ITYYLKRKVE GKPMRFDVIR EVNIYKHEPS 60 DLAELSRLKT KDQEWYFFCP LEKRQNSSTV INRATKEGYW KKTGDDKKIK REGDDELIGV 120 VKTLVYHRGR SPKGNRTNWV LYEYRLVQNK LEIDSYVVCR VIRKEHFGPS TECIYAPFSE 180 QDWDDGINEK IQQVLDQINL CVVHLSSYVN VKCCVGKPHA GKEPH

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ut4_A	1e-36	9	165	11	166	NO APICAL MERISTEM PROTEIN
1ut4_B	1e-36	9	165	11	166	NO APICAL MERISTEM PROTEIN
1ut7_A	1e-36	9	165	11	166	NO APICAL MERISTEM PROTEIN
1ut7_B	1e-36	9	165	11	166	NO APICAL MERISTEM PROTEIN
4dul_A	1e-36	9	165	11	166	NAC domain-containing protein 19
4dul_B	1e-36	9	165	11	166	NAC domain-containing protein 19
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Mostly expressed in floral organs, and, at low levels, in other organs. {ECO:0000269\|PubMed:25578968}.

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009121975.1

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_009121975.1	1e-168	PREDICTED: NAC domain-containing protein 53-like isoform X1
Swissprot	Q9SQX9	8e-72	NAC50_ARATH; NAC domain containing protein 50
TrEMBL	M4CXN3	1e-143	M4CXN3_BRARP; Uncharacterized protein
STRING	Bra008980.1-P	1e-143	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM23481	3	4

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G10480.2	9e-75	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]