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

Phvul.004G004900.1

Common Name

PHAVU_004G004900g

Organism

Phaseolus vulgaris

Taxonomic ID

3885

Taxonomic Lineage

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

Family

NAC

Protein Properties

Length: 364aa MW: 40858.3 Da PI: 5.6021

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Phvul.004G004900.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	96.9	3.1e-30	30	171	2	128
NAM 2 ppGfrFhPtdeelvveyLkkkvegkk......leleevikevd....iykvePwdLpkkvkaeekewyfFskrdkkyatgkrknra..... 77 p+G++F+P+d el+ ++L++k+ + + +e+i++++ i++++P++Lp ++++ ++++fF+k++++yatg+rk+r+ Phvul.004G004900.1 30 PVGVKFDPSDIELL-KHLEAKCCVGNreqhvfI--HEFIPTLEgeqgICYTHPENLP-GARKDGNSVHFFHKTANAYATGRRKRRKihhqd 116 89**********.899999766553554332..223433323334******.55667899***************867777 PP NAM 78 ...tksgyWkatgkdkevlskkgelvglkktLvfy..kgrapkgektdWvmheyrl 128 ++ +W++tg++k+v++ +g ++g kk++v+y +++ +k+ kt+Wvmh+++l Phvul.004G004900.1 117 gltEEHVRWHKTGRTKSVTE-DGVHKGFKKIMVLYirSKEGSKAYKTNWVMHQFHL 171 77444889*******9.999*******7655677788*******98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	9.55E-36	14	190	IPR003441	NAC domain
PROSITE profile	PS51005	29.445	29	190	IPR003441	NAC domain
Pfam	PF02365	3.1E-12	30	171	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: 364 aa Download sequence Send to blast
MKNCETYREC PKCHYHSNNT DVSHEWPGFP VGVKFDPSDI ELLKHLEAKC CVGNREQHVF 60 IHEFIPTLEG EQGICYTHPE NLPGARKDGN SVHFFHKTAN AYATGRRKRR KIHHQDGLTE 120 EHVRWHKTGR TKSVTEDGVH KGFKKIMVLY IRSKEGSKAY KTNWVMHQFH LGSEEEEKDG 180 EYVVSKVFYQ HQKHTEKNEE NTVVEDSNIA AQAGPSTPNP NPPTRPCTGK CDDHFDENEL 240 LSFIQDAKPI PGESLAPPSD VQHEDIKVDP AWLAGESQPD CDFHELEEIL LMSDSSALFN 300 HSGLASPLNG TANSLVAPGN TNDYASSGVS LLDTLELESP PDFDLSNLQF GSQDSTLQWM 360 DKL*

Sequence ? help Back to Top

Protein Sequence Length: 364 aa Download sequence Send to blast

MKNCETYREC PKCHYHSNNT DVSHEWPGFP VGVKFDPSDI ELLKHLEAKC CVGNREQHVF  60
IHEFIPTLEG EQGICYTHPE NLPGARKDGN SVHFFHKTAN AYATGRRKRR KIHHQDGLTE  120
EHVRWHKTGR TKSVTEDGVH KGFKKIMVLY IRSKEGSKAY KTNWVMHQFH LGSEEEEKDG  180
EYVVSKVFYQ HQKHTEKNEE NTVVEDSNIA AQAGPSTPNP NPPTRPCTGK CDDHFDENEL  240
LSFIQDAKPI PGESLAPPSD VQHEDIKVDP AWLAGESQPD CDFHELEEIL LMSDSSALFN  300
HSGLASPLNG TANSLVAPGN TNDYASSGVS LLDTLELESP PDFDLSNLQF GSQDSTLQWM  360
DKL*

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	Phvul.004G004900.1

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	AP015643	0.0	AP015643.1 Vigna angularis var. angularis DNA, scaffold: Scaffold_0599, complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_007150911.1	0.0	hypothetical protein PHAVU_004G004900g
Swissprot	Q6NQK2	4e-73	NAC8_ARATH; SUPPRESSOR OF GAMMA RESPONSE 1
TrEMBL	V7C0T0	0.0	V7C0T0_PHAVU; Uncharacterized protein
STRING	XP_007150911.1	0.0	(Phaseolus vulgaris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF7572	30	47

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G25580.1	1e-74	NAC family protein

Link Out ? help Back to Top
Phytozome	Phvul.004G004900.1
Entrez Gene	18631573

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]