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

RrC4607_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: 195aa MW: 22424 Da PI: 4.734

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC4607_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	93.9	2.6e-29	16	125	7	128
NAM 7 FhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpkkvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkevlsk.kgelvglkk 104 F Ptdeelvv++L++k++ +++ +vi+++d+y ++PwdLp k+ +e ++wyf+s++ ++r+t++gyW + g d++++ + ++++vg+kk RrC4607_p1 16 FFPTDEELVVHFLQRKASLLPCHP-DVIPDLDLYPYDPWDLPGKALGEGRQWYFYSRKT--------QERVTSNGYWGSMGIDEPIFISsTHKKVGIKK 105 99*****************999.99***********87778899*9975........5799***********99867888* PP NAM 105 tLvfykgrapkgektdWvmheyrl 128 ++fy g++ +t+W+m+ey+l RrC4607_p1 106 YFTFYLGDS----QTNWIMQEYSL 125 *7654....68*****97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51005	34.918	10	163	IPR003441	NAC domain
SuperFamily	SSF101941	3.27E-37	15	163	IPR003441	NAC domain
Pfam	PF02365	2.7E-18	16	125	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: 195 aa Download sequence Send to blast
MKAKEERKVG SIILWFFPTD EELVVHFLQR KASLLPCHPD VIPDLDLYPY DPWDLPGKAL 60 GEGRQWYFYS RKTQERVTSN GYWGSMGIDE PIFISSTHKK VGIKKYFTFY LGDSQTNWIM 120 QEYSLPDSSS SSKRSSKKSG RGSTSSSHKT DYSKWAICRV YEQNCSEEED DDGTELSCLD 180 EVFLSLDDLD EVSLP

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3swm_A	1e-28	16	169	26	174	NAC domain-containing protein 19
3swm_B	1e-28	16	169	26	174	NAC domain-containing protein 19
3swm_C	1e-28	16	169	26	174	NAC domain-containing protein 19
3swm_D	1e-28	16	169	26	174	NAC domain-containing protein 19
3swp_A	1e-28	16	169	26	174	NAC domain-containing protein 19
3swp_B	1e-28	16	169	26	174	NAC domain-containing protein 19
3swp_C	1e-28	16	169	26	174	NAC domain-containing protein 19
3swp_D	1e-28	16	169	26	174	NAC domain-containing protein 19
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor that influences tracheary elements and xylem development by negatively regulating secondary cell wall fiber synthesis and programmed cell death. {ECO:0000269\|PubMed:18069942, ECO:0000269\|PubMed:20458494}.

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	AK118783	0.0	AK118783.1 Arabidopsis thaliana At5g64530 mRNA for unknown protein, complete cds, clone: RAFL21-11-N14.
GenBank	BT025746	0.0	BT025746.1 Arabidopsis thaliana At5g64530 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018489325.1	1e-129	PREDICTED: NAC domain-containing protein 104-like
Swissprot	Q8GWK6	1e-109	NC104_ARATH; NAC domain-containing protein 104
TrEMBL	A0A397Z6T6	1e-110	A0A397Z6T6_BRACM; Uncharacterized protein
STRING	Bra024306.1-P	1e-109	(Brassica rapa)
STRING	Bo3g101220.1	1e-109	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3674	28	62

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G64530.1	3e-90	xylem NAC domain 1

Publications ? help Back to Top
Zhao C, et al. XYLEM NAC DOMAIN1, an angiosperm NAC transcription factor, inhibits xylem differentiation through conserved motifs that interact with RETINOBLASTOMA-RELATED. New Phytol., 2017. 216(1): p. 76-89 [PMID:28742236] Tang N, et al. Natural variation at XND1 impacts root hydraulics and trade-off for stress responses in Arabidopsis. Nat Commun, 2018. 9(1): p. 3884 [PMID:30250259]