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

Sobic.004G176600.1.p

Organism

Sorghum bicolor

Taxonomic ID

4558

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum

Family

NAC

Protein Properties

Length: 205aa MW: 22748.2 Da PI: 6.0702

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.004G176600.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	106.5	3.3e-33	7	124	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpkkvkaeekewyfFskrdkkyatgkrknratksgyWkatgkd 89 lppGf+F P+de+l+v++L++kv++ +++ ++++++ +++++Pw+L+ ++ + ++wyfFs++++ +r+ +gyW+ g d Sobic.004G176600.1.p 7 LPPGFHFFPSDEDLIVHFLRRKVANLPCRP-DIVPTILLHRYDPWELNGTALQAGNQWYFFSHAAQ--------SRTSPNGYWNPVGAD 86 79***********************999.89**********965566789**9865........678899***** PP NAM 90 kevlskkgelvglkktLvfykgrapkgektdWvmheyrl 128 ++v+s +g vglkktL+f +g+ kg kt+W+mhey+l Sobic.004G176600.1.p 87 ETVTS-SGCIVGLKKTLIFCTGEPFKGFKTNWIMHEYHL 124 *.999***************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	3.27E-45	4	167	IPR003441	NAC domain
PROSITE profile	PS51005	41.796	7	168	IPR003441	NAC domain
Pfam	PF02365	2.9E-21	8	124	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: 205 aa Download sequence Send to blast
MGGATNLPPG FHFFPSDEDL IVHFLRRKVA NLPCRPDIVP TILLHRYDPW ELNGTALQAG 60 NQWYFFSHAA QSRTSPNGYW NPVGADETVT SSGCIVGLKK TLIFCTGEPF KGFKTNWIMH 120 EYHLQDGGYN VSGSSTSSSS SSSRKSQRKR LHSSTESNNW VICRVFESSC GSQVSFHDEG 180 TELSCLDEVF LSLDDYDEVS LPNN*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3swm_A	1e-34	6	173	19	173	NAC domain-containing protein 19
3swm_B	1e-34	6	173	19	173	NAC domain-containing protein 19
3swm_C	1e-34	6	173	19	173	NAC domain-containing protein 19
3swm_D	1e-34	6	173	19	173	NAC domain-containing protein 19
3swp_A	1e-34	6	173	19	173	NAC domain-containing protein 19
3swp_B	1e-34	6	173	19	173	NAC domain-containing protein 19
3swp_C	1e-34	6	173	19	173	NAC domain-containing protein 19
3swp_D	1e-34	6	173	19	173	NAC domain-containing protein 19
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in root xylem vessels (PubMed:15923329). Expressed in stems, vascular tissue of cauline leaves and tracheary elements of sepals (PubMed:18069942). {ECO:0000269\|PubMed:15923329, ECO:0000269\|PubMed:18069942}.

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sobic.004G176600.1.p

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_021314570.1	1e-152	NAC domain-containing protein 104 isoform X2
Swissprot	Q8GWK6	6e-60	NC104_ARATH; NAC domain-containing protein 104
TrEMBL	A0A194YQD2	1e-151	A0A194YQD2_SORBI; Uncharacterized protein
STRING	Si018368m	1e-135	(Setaria italica)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP3667	36	79
Representative plant	OGRP4510	10	24

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G64530.1	4e-60	xylem NAC domain 1

Link Out ? help Back to Top
Phytozome	Sobic.004G176600.1.p

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]