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.006G086000.1.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: 206aa MW: 22525.9 Da PI: 5.025

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.006G086000.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	104.6	1.2e-32	10	129	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpkkvkaeekewyfFskrdkkyatgkrknratksgyWkatgkd 89 lppGf+F P+deelvv++L++k++ +++ +++++v +++++Pw+L+ k+ + ++wyfFs++++ +r+t +gyW++ d Sobic.006G086000.1.p 10 LPPGFHFFPSDEELVVHFLRRKASLLPCQP-DIVPTVCMNHYDPWELNGKALGAGNQWYFFSHAKH--------SRVTPNGYWSSVCAD 89 79***********************999.89**********977677889**9754........799******** PP NAM 90 kevlskkgelvglkktLvfykg..rapkgektdWvmheyrl 128 ++v s +g vglkktLvf +g ++++g++t+W+mhey+l Sobic.006G086000.1.p 90 ETVSS-GGCSVGLKKTLVFSTGepSESEGTETNWIMHEYHL 129 99.99*********8755788999*******98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	1.11E-41	7	166	IPR003441	NAC domain
PROSITE profile	PS51005	39.51	10	168	IPR003441	NAC domain
Pfam	PF02365	2.1E-22	11	129	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:0010089	Biological Process	xylem development
GO:0043067	Biological Process	regulation of programmed cell death
GO:0048367	Biological Process	shoot system development
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 206 aa Download sequence Send to blast
MGGASNSNLL PPGFHFFPSD EELVVHFLRR KASLLPCQPD IVPTVCMNHY DPWELNGKAL 60 GAGNQWYFFS HAKHSRVTPN GYWSSVCADE TVSSGGCSVG LKKTLVFSTG EPSESEGTET 120 NWIMHEYHLL DGRKGISSST TSTNSSSKKL HHPNTESNNW VICRVFDSTT GGSQASCHEE 180 GMELSCLDEV FLSLDDYDEV SLSNN*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ut4_A	7e-34	10	174	17	171	NO APICAL MERISTEM PROTEIN
1ut4_B	7e-34	10	174	17	171	NO APICAL MERISTEM PROTEIN
1ut7_A	7e-34	10	174	17	171	NO APICAL MERISTEM PROTEIN
1ut7_B	7e-34	10	174	17	171	NO APICAL MERISTEM PROTEIN
3swm_A	7e-34	10	174	20	174	NAC domain-containing protein 19
3swm_B	7e-34	10	174	20	174	NAC domain-containing protein 19
3swm_C	7e-34	10	174	20	174	NAC domain-containing protein 19
3swm_D	7e-34	10	174	20	174	NAC domain-containing protein 19
3swp_A	7e-34	10	174	20	174	NAC domain-containing protein 19
3swp_B	7e-34	10	174	20	174	NAC domain-containing protein 19
3swp_C	7e-34	10	174	20	174	NAC domain-containing protein 19
3swp_D	7e-34	10	174	20	174	NAC domain-containing protein 19
4dul_A	7e-34	10	174	17	171	NAC domain-containing protein 19
4dul_B	7e-34	10	174	17	171	NAC domain-containing protein 19
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Sbi.7243	0.0	leaf

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.006G086000.1.p

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	BT063557	1e-41	BT063557.1 Zea mays full-length cDNA clone ZM_BFc0077D21 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_021318322.1	1e-152	NAC domain-containing protein 104-like
Swissprot	Q8GWK6	8e-63	NC104_ARATH; NAC domain-containing protein 104
TrEMBL	A0A1B6PL13	1e-150	A0A1B6PL13_SORBI; Uncharacterized protein
STRING	Sb06g017190.1	1e-151	(Sorghum bicolor)

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	1e-60	xylem NAC domain 1

Link Out ? help Back to Top
Phytozome	Sobic.006G086000.1.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]