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

evm_27.model.AmTr_v1.0_scaffold00049.251

Common Name

AMTR_s00049p00217400

Organism

Amborella trichopoda

Taxonomic ID

13333

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella

Family

NAC

Protein Properties

Length: 355aa MW: 40249.2 Da PI: 7.0805

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00049.251	genome	TAGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	95.8	6.8e-30	57	199	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkk......lelee....vi.kevdiykvePwdLpkkvkaeekew 58 lp+G++F+P+d el+ +L+ kv + + ++ ++ +i++++P+dLp +k + +++ evm_27.model.AmTr_v1.0_scaffold00049.251 57 LPAGVKFDPSDVELL-GHLAGKVGFGGstahafI---DefipTLeNDEGICYTHPKDLP-GIKMDGTSI 120 799**********.789999987774454332...132222213346******.6677889 PP NAM 59 yfFskrdkkyatgkrknratk........sgyWkatgkdkevlskkgelvglkktLvfykg..rapkge 117 +fF+++ ++yatg+rk+r+++ + +W++tg++k v++ +g +g kk++v+y++ + +k+ evm_27.model.AmTr_v1.0_scaffold00049.251 121 HFFHRTTNAYATGSRKRRKIHrecnwdggHVRWHKTGTTKVVIE-NGVPKGRKKIMVLYRNstKGSKPD 188 ****************84444555544678**999999.99********6433667778 PP NAM 118 ktdWvmheyrl 128 kt+Wvmh+y+l evm_27.model.AmTr_v1.0_scaffold00049.251 189 KTNWVMHQYHL 199 *******98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	7.32E-37	42	218	IPR003441	NAC domain
PROSITE profile	PS51005	29.535	57	218	IPR003441	NAC domain
Pfam	PF02365	1.1E-12	58	199	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: 355 aa Download sequence Send to blast
MARAWLIDSR GIARKVKSAA HFSGPQIKEW FGEANRECPN CNYKIDNSDV SLEWPGLPAG 60 VKFDPSDVEL LGHLAGKVGF GGSTAHAFID EFIPTLENDE GICYTHPKDL PGIKMDGTSI 120 HFFHRTTNAY ATGSRKRRKI HRECNWDGGH VRWHKTGTTK VVIENGVPKG RKKIMVLYRN 180 STKGSKPDKT NWVMHQYHLG RNEEEKDGEF VVSKVFYQQQ KQLEKCDYEP ASQEPDASTV 240 KTSPRTPKTT TPHPPRPRKP STCEEVSETN LQVEEVEEPL QLKYFYSEVG RRSTCEEVSE 300 TNLQVEEVEE PLQANFYVYR QTLESEAIHV VRFIWGHTCL ACHSQDMAAS LGHF*

Sequence ? help Back to Top

Protein Sequence Length: 355 aa Download sequence Send to blast

MARAWLIDSR GIARKVKSAA HFSGPQIKEW FGEANRECPN CNYKIDNSDV SLEWPGLPAG  60
VKFDPSDVEL LGHLAGKVGF GGSTAHAFID EFIPTLENDE GICYTHPKDL PGIKMDGTSI  120
HFFHRTTNAY ATGSRKRRKI HRECNWDGGH VRWHKTGTTK VVIENGVPKG RKKIMVLYRN  180
STKGSKPDKT NWVMHQYHLG RNEEEKDGEF VVSKVFYQQQ KQLEKCDYEP ASQEPDASTV  240
KTSPRTPKTT TPHPPRPRKP STCEEVSETN LQVEEVEEPL QLKYFYSEVG RRSTCEEVSE  300
TNLQVEEVEE PLQANFYVYR QTLESEAIHV VRFIWGHTCL ACHSQDMAAS LGHF*

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}.

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_011626247.1	0.0	SUPPRESSOR OF GAMMA RESPONSE 1
Swissprot	Q6NQK2	3e-92	NAC8_ARATH; SUPPRESSOR OF GAMMA RESPONSE 1
TrEMBL	W1Q0B7	0.0	W1Q0B7_AMBTC; Uncharacterized protein
STRING	ERN13821	0.0	(Amborella trichopoda)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Representative plant	OGRP525	15	85

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G25580.1	4e-91	NAC family protein

Link Out ? help Back to Top
Phytozome	evm_27.model.AmTr_v1.0_scaffold00049.251

Publications ? help Back to Top
Amborella Genome Project The Amborella genome and the evolution of flowering plants. Science, 2013. 342(6165): p. 1241089 [PMID:24357323] 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]