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

Glyma.01G088200.3.p

Common Name

GLYMA_01G088200, LOC100799488

Organism

Glycine max

Taxonomic ID

3847

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja

Family

NAC

Protein Properties

Length: 427aa MW: 47973.4 Da PI: 4.766

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Glyma.01G088200.3.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	103.1	3.8e-32	58	197	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkk.....leleevikevd..iykvePwdLpkkvkaeekewyfFskrdkkyatgkrknra.....t 78 lp+G++F+P+d+e++++ L+k g++ ++++ + evd i++++P++Lp vk++ + +fF+++ ++y+tg+rk+r+ Glyma.01G088200.3.p 58 LPKGVKFDPSDQEIIWHLLAKVGVGDSkphpfIDEFITTLEVDdgICYTHPQNLP-GVKQDGSASHFFHRAINAYNTGTRKRRKilgqdF 146 799**********888877755444576554444444444345******.677888999**************7455554 PP NAM 79 ksgyWkatgkdkevlskkgelvglkktLvfy..kgrapkgektdWvmheyrl 128 + +W++tg++k+v+ +g ++g+kk++v+y + r ++ekt+Wvmh+y+l Glyma.01G088200.3.p 147 GDVRWHKTGRTKPVVF-NGIQKGCKKIMVLYvsNVRGGRAEKTNWVMHQYHL 197 4889********.99********7666888999*******98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	1.7E-37	44	216	IPR003441	NAC domain
PROSITE profile	PS51005	30.579	58	216	IPR003441	NAC domain
Pfam	PF02365	1.5E-13	59	197	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:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 427 aa Download sequence Send to blast
MAGTSWLVDK SRIATKIKCA SGACDPGKVI WKSNPTKPCP NCQHAIDNDD VAQEWPGLPK 60 GVKFDPSDQE IIWHLLAKVG VGDSKPHPFI DEFITTLEVD DGICYTHPQN LPGVKQDGSA 120 SHFFHRAINA YNTGTRKRRK ILGQDFGDVR WHKTGRTKPV VFNGIQKGCK KIMVLYVSNV 180 RGGRAEKTNW VMHQYHLGTE EDEKDGEYII SKVFYQQQQV KLGDKDDKDV PEATEINEST 240 IVKVDPVTPK FVTPETPCNE RWCADLDLGQ ETHNSPQLPQ MDCLDEIQAD YQDLANESSM 300 VETQHNEGMD DKEKNTEEGQ KWWDSESQNL LDSQQLVEAL SLCDDLLQSQ SPSRDGKHED 360 HKNQPGLSVY AQLGPENLKK DIEECQNLAL DKANIENDTP SEFRLSQLEF GSQDSFISWG 420 YGKAVN*

Sequence ? help Back to Top

Protein Sequence Length: 427 aa Download sequence Send to blast

MAGTSWLVDK SRIATKIKCA SGACDPGKVI WKSNPTKPCP NCQHAIDNDD VAQEWPGLPK  60
GVKFDPSDQE IIWHLLAKVG VGDSKPHPFI DEFITTLEVD DGICYTHPQN LPGVKQDGSA  120
SHFFHRAINA YNTGTRKRRK ILGQDFGDVR WHKTGRTKPV VFNGIQKGCK KIMVLYVSNV  180
RGGRAEKTNW VMHQYHLGTE EDEKDGEYII SKVFYQQQQV KLGDKDDKDV PEATEINEST  240
IVKVDPVTPK FVTPETPCNE RWCADLDLGQ ETHNSPQLPQ MDCLDEIQAD YQDLANESSM  300
VETQHNEGMD DKEKNTEEGQ KWWDSESQNL LDSQQLVEAL SLCDDLLQSQ SPSRDGKHED  360
HKNQPGLSVY AQLGPENLKK DIEECQNLAL DKANIENDTP SEFRLSQLEF GSQDSFISWG  420
YGKAVN*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Gma.60789	0.0	cotyledon

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in shoot and root apical meristems, in lateral root primordia, in the vasculature of young leaves and in the root stele. {ECO:0000269\|PubMed:23907539}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor regulating the transcriptional activation response to gamma irradiation (PubMed:19549833). Required for stem-cell death induced by UVB or by gamma irradiation (PubMed:20634150). Not required for ATM activation, but participates in pathways governed by both ATM and ATR sensor kinases (PubMed:19549833). Involved in DNA damage response (DDR) system that regulates cell cycle arrest (PubMed:24399300). Functional homolog of animal p53 (PubMed:24736489). Regulates SMR5 and SMR7 transcription (PubMed:24399300). Regulates DNA repair and cytokinin signaling separately and plays a key role in controlling lateral root formation under genotoxic stress. {ECO:0000269\|PubMed:19549833, ECO:0000269\|PubMed:20634150, ECO:0000269\|PubMed:24399300, ECO:0000305\|PubMed:24736489}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Glyma.01G088200.3.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Not induced by zeocin or ionizing radiation treatment. {ECO:0000269\|PubMed:23907539}.

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	BT096178	0.0	BT096178.1 Soybean clone JCVI-FLGm-15M18 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_003518010.1	0.0	SUPPRESSOR OF GAMMA RESPONSE 1
Refseq	XP_028234162.1	0.0	SUPPRESSOR OF GAMMA RESPONSE 1-like
Swissprot	Q6NQK2	1e-173	NAC8_ARATH; SUPPRESSOR OF GAMMA RESPONSE 1
TrEMBL	A0A0B2PTE1	0.0	A0A0B2PTE1_GLYSO; NAC domain-containing protein 8
TrEMBL	I1J6R0	0.0	I1J6R0_SOYBN; Uncharacterized protein
STRING	GLYMA01G22510.1	0.0	(Glycine max)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G25580.1	1e-166	NAC family protein

Link Out ? help Back to Top
Phytozome	Glyma.01G088200.3.p
Entrez Gene	100799488

Publications ? help Back to Top
Yi D, et al. The Arabidopsis SIAMESE-RELATED cyclin-dependent kinase inhibitors SMR5 and SMR7 regulate the DNA damage checkpoint in response to reactive oxygen species. Plant Cell, 2014. 26(1): p. 296-309 [PMID:24399300] Biever JJ,Brinkman D,Gardner G UV-B inhibition of hypocotyl growth in etiolated Arabidopsis thaliana seedlings is a consequence of cell cycle arrest initiated by photodimer accumulation. J. Exp. Bot., 2014. 65(11): p. 2949-61 [PMID:24591052] Hu Z,Cools T,Kalhorzadeh P,Heyman J,De Veylder L Deficiency of the Arabidopsis helicase RTEL1 triggers a SOG1-dependent replication checkpoint in response to DNA cross-links. Plant Cell, 2015. 27(1): p. 149-61 [PMID:25595823] Chen P,Umeda M DNA double-strand breaks induce the expression of flavin-containing monooxygenase and reduce root meristem size in Arabidopsis thaliana. Genes Cells, 2015. 20(8): p. 636-46 [PMID:26033196] Sjogren CA,Bolaris SC,Larsen PB Aluminum-Dependent Terminal Differentiation of the Arabidopsis Root Tip Is Mediated through an ATR-, ALT2-, and SOG1-Regulated Transcriptional Response. Plant Cell, 2015. 27(9): p. 2501-15 [PMID:26320227] Yoshiyama KO SOG1: a master regulator of the DNA damage response in plants. Genes Genet. Syst., 2016. 90(4): p. 209-16 [PMID:26617076] Weimer AK, et al. The plant-specific CDKB1-CYCB1 complex mediates homologous recombination repair in Arabidopsis. EMBO J., 2016. 35(19): p. 2068-2086 [PMID:27497297] Davis OM,Ogita N,Inagaki S,Takahashi N,Umeda M DNA damage inhibits lateral root formation by up-regulating cytokinin biosynthesis genes in Arabidopsis thaliana. Genes Cells, 2016. 21(11): p. 1195-1208 [PMID:27658920] Pedroza-García JA, et al. Function of the Plant DNA Polymerase Epsilon in Replicative Stress Sensing, a Genetic Analysis. Plant Physiol., 2017. 173(3): p. 1735-1749 [PMID:28153919] Horvath BM, et al. Arabidopsis RETINOBLASTOMA RELATED directly regulates DNA damage responses through functions beyond cell cycle control. EMBO J., 2017. 36(9): p. 1261-1278 [PMID:28320736] Sjogren CA,Larsen PB SUV2, which encodes an ATR-related cell cycle checkpoint and putative plant ATRIP, is required for aluminium-dependent root growth inhibition in Arabidopsis. Plant Cell Environ., 2017. 40(9): p. 1849-1860 [PMID:28556304] Yoshiyama KO,Kaminoyama K,Sakamoto T,Kimura S Increased Phosphorylation of Ser-Gln Sites on SUPPRESSOR OF GAMMA RESPONSE1 Strengthens the DNA Damage Response in Arabidopsis thaliana. Plant Cell, 2017. 29(12): p. 3255-3268 [PMID:29208704] Johnson RA, et al. SUPPRESSOR OF GAMMA RESPONSE1 Links DNA Damage Response to Organ Regeneration. Plant Physiol., 2018. 176(2): p. 1665-1675 [PMID:29222192] Ogita N, et al. Identifying the target genes of SUPPRESSOR OF GAMMA RESPONSE 1, a master transcription factor controlling DNA damage response in Arabidopsis. Plant J., 2018. 94(3): p. 439-453 [PMID:29430765] Cao X, et al. Roles of MSH2 and MSH6 in cadmium-induced G2/M checkpoint arrest in Arabidopsis roots. Chemosphere, 2018. 201: p. 586-594 [PMID:29533809]