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.006G086000.2.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: 165aa MW: 18082.3 Da PI: 7.2646

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.006G086000.2.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	105.6	6.4e-33	10	129	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpkkvkaeekewyfFskrdkkyatgkrknratksgyWkatgkd 89 lppGf+F P+deelvv++L++k++ +++ +++++v +++++Pw+L+ k+ + ++wyfFs++++ +r+t +gyW++ d Sobic.006G086000.2.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.006G086000.2.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	8.89E-40	6	133	IPR003441	NAC domain
PROSITE profile	PS51005	35.314	10	153	IPR003441	NAC domain
Pfam	PF02365	1.1E-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: 165 aa Download sequence Send to blast
MGGASNSNLL PPGFHFFPSD EELVVHFLRR KASLLPCQPD IVPTVCMNHY DPWELNGKAL 60 GAGNQWYFFS HAKHSRVTPN GYWSSVCADE TVSSGGCSVG LKKTLVFSTG EPSESEGTET 120 NWIMHEYHLL DGRKGISSST TSTNSSSKKL HHPNTVRATC IYMF*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ut4_A	2e-31	10	131	17	144	NO APICAL MERISTEM PROTEIN
1ut4_B	2e-31	10	131	17	144	NO APICAL MERISTEM PROTEIN
1ut7_A	2e-31	10	131	17	144	NO APICAL MERISTEM PROTEIN
1ut7_B	2e-31	10	131	17	144	NO APICAL MERISTEM PROTEIN
3swm_A	2e-31	10	131	20	147	NAC domain-containing protein 19
3swm_B	2e-31	10	131	20	147	NAC domain-containing protein 19
3swm_C	2e-31	10	131	20	147	NAC domain-containing protein 19
3swm_D	2e-31	10	131	20	147	NAC domain-containing protein 19
3swp_A	2e-31	10	131	20	147	NAC domain-containing protein 19
3swp_B	2e-31	10	131	20	147	NAC domain-containing protein 19
3swp_C	2e-31	10	131	20	147	NAC domain-containing protein 19
3swp_D	2e-31	10	131	20	147	NAC domain-containing protein 19
4dul_A	2e-31	10	131	17	144	NAC domain-containing protein 19
4dul_B	2e-31	10	131	17	144	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.006G086000.2.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_021318322.1	1e-112	NAC domain-containing protein 104-like
Swissprot	Q8GWK6	3e-46	NC104_ARATH; NAC domain-containing protein 104
TrEMBL	A0A1B6PL30	1e-119	A0A1B6PL30_SORBI; Uncharacterized protein
STRING	Sb06g017190.1	1e-112	(Sorghum bicolor)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G64530.1	9e-45	xylem NAC domain 1

Link Out ? help Back to Top
Phytozome	Sobic.006G086000.2.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]