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

RrC308_p5

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: 296aa MW: 33641.7 Da PI: 6.3666

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC308_p5	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	180.6	4.1e-56	5	131	1	129
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpkkvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkevlskkgelv 100 lppGfrFhPtdeel+++yL++kv+++ ++ +++ +vd++k+ePwdLp k++ +ekewyfFs rd+ky+tg r+nrat++gyWk+tgkdke+++ +g lv RrC308_p5 5 LPPGFRFHPTDEELITHYLCRKVSDNGFTG-KAVVDVDLNKCEPWDLPDKASMGEKEWYFFSLRDRKYPTGLRTNRATEAGYWKTTGKDKEIYR-SGVLV 102 79***********************999.88***********988999************************************.999 PP NAM 101 glkktLvfykgrapkgektdWvmheyrle 129 g+kktLvfykgrapkgek++Wvmheyrle RrC308_p5 103 GMKKTLVFYKGRAPKGEKSNWVMHEYRLE 131 ***************************85 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	6.15E-65	3	151	IPR003441	NAC domain
PROSITE profile	PS51005	60.395	5	151	IPR003441	NAC domain
Pfam	PF02365	3.3E-29	6	130	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: 296 aa Download sequence Send to blast
MEENLPPGFR FHPTDEELIT HYLCRKVSDN GFTGKAVVDV DLNKCEPWDL PDKASMGEKE 60 WYFFSLRDRK YPTGLRTNRA TEAGYWKTTG KDKEIYRSGV LVGMKKTLVF YKGRAPKGEK 120 SNWVMHEYRL ENKQPFTPAK EEWVVCRVFQ KSTATKKPQE QQPQSSFGSP CDAISSMANE 180 FEDIELPNLN SNSSTVDYNH IHQQLYSQNN VYSDNTTSTA GLNMNMANNL PAWTTSLLGP 240 PLSPINSLLL KAFQIRNSYN INPSLLQQGV SNVMQDGSSS SQPQPQEEAF NMDSLW

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ut4_A	6e-59	4	157	16	171	NO APICAL MERISTEM PROTEIN
1ut4_B	6e-59	4	157	16	171	NO APICAL MERISTEM PROTEIN
1ut7_A	6e-59	4	157	16	171	NO APICAL MERISTEM PROTEIN
1ut7_B	6e-59	4	157	16	171	NO APICAL MERISTEM PROTEIN
3swm_A	6e-59	4	157	19	174	NAC domain-containing protein 19
3swm_B	6e-59	4	157	19	174	NAC domain-containing protein 19
3swm_C	6e-59	4	157	19	174	NAC domain-containing protein 19
3swm_D	6e-59	4	157	19	174	NAC domain-containing protein 19
3swp_A	6e-59	4	157	19	174	NAC domain-containing protein 19
3swp_B	6e-59	4	157	19	174	NAC domain-containing protein 19
3swp_C	6e-59	4	157	19	174	NAC domain-containing protein 19
3swp_D	6e-59	4	157	19	174	NAC domain-containing protein 19
4dul_A	6e-59	4	157	16	171	NAC domain-containing protein 19
4dul_B	6e-59	4	157	16	171	NAC domain-containing protein 19
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Binds to the promoter regions of genes involved in chlorophyll catabolic processes, such as NYC1, SGR1, SGR2 and PAO. {ECO:0000269\|PubMed:27021284}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by the microRNA miR164. {ECO:0000269\|PubMed:15294871, ECO:0000269\|PubMed:17098808}.

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	AB026658	3e-77	AB026658.1 Arabidopsis thaliana genomic DNA, chromosome 3, P1 clone: MYF24.
GenBank	CP002686	3e-77	CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018438589.1	0.0	PREDICTED: NAC domain-containing protein 100-like
Swissprot	Q9FLJ2	5e-83	NC100_ARATH; NAC domain-containing protein 100
TrEMBL	A0A3P5ZNY0	0.0	A0A3P5ZNY0_BRACM; Uncharacterized protein
STRING	Bra037585.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5527	26	49

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G18400.1	1e-175	NAC domain containing protein 58

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546]