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

676765096

Organism

Sisymbrium irio

Taxonomic ID

3730

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Sisymbrieae; Sisymbrium

Family

MYB_related

Protein Properties

Length: 587aa MW: 65656.8 Da PI: 10.1468

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
676765096	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	43.4	8.1e-14	301	345	1	47
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 r +WT+eE++++++a +++ + Wk+I +g +t q++s+ qky 676765096 301 RESWTEEEHDKFLEALQLFDRD-WKKIEDFVG-SKTVIQIRSHAQKY 345 789***************77.*****.***********9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF55797	1.31E-36	45	163	IPR014044	CAP domain
Gene3D	G3DSA:3.40.33.10	1.5E-34	45	167	IPR014044	CAP domain
SMART	SM00198	6.0E-32	45	168	IPR014044	CAP domain
CDD	cd05381	3.75E-60	47	167	No hit	No description
Pfam	PF00188	2.1E-24	51	164	IPR014044	CAP domain
PRINTS	PR00838	6.0E-6	66	84	IPR002413	Ves allergen
PRINTS	PR00837	6.0E-8	66	84	IPR001283	Cysteine-rich secretory protein, allergen V5/Tpx-1-related
PRINTS	PR00838	6.0E-6	112	127	IPR002413	Ves allergen
PRINTS	PR00837	6.0E-8	114	127	IPR001283	Cysteine-rich secretory protein, allergen V5/Tpx-1-related
PRINTS	PR00838	6.0E-6	137	156	IPR002413	Ves allergen
PRINTS	PR00837	6.0E-8	138	154	IPR001283	Cysteine-rich secretory protein, allergen V5/Tpx-1-related
PROSITE pattern	PS01009	0	139	149	IPR018244	Allergen V5/Tpx-1-related, conserved site
SuperFamily	SSF46689	3.44E-17	295	351	IPR009057	Homeodomain-like
PROSITE profile	PS51294	16.291	296	350	IPR017930	Myb domain
Gene3D	G3DSA:1.10.10.60	7.3E-7	299	351	IPR009057	Homeodomain-like
TIGRFAMs	TIGR01557	2.3E-18	299	348	IPR006447	Myb domain, plants
SMART	SM00717	1.1E-11	300	348	IPR001005	SANT/Myb domain
Pfam	PF00249	1.8E-11	301	345	IPR001005	SANT/Myb domain
CDD	cd00167	8.79E-9	303	346	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009651	Biological Process	response to salt stress
GO:0009723	Biological Process	response to ethylene
GO:0009733	Biological Process	response to auxin
GO:0009737	Biological Process	response to abscisic acid
GO:0009739	Biological Process	response to gibberellin
GO:0009751	Biological Process	response to salicylic acid
GO:0009753	Biological Process	response to jasmonic acid
GO:0032922	Biological Process	circadian regulation of gene expression
GO:0043966	Biological Process	histone H3 acetylation
GO:0046686	Biological Process	response to cadmium ion
GO:0048573	Biological Process	photoperiodism, flowering
GO:0005576	Cellular Component	extracellular region
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 587 aa Download sequence Send to blast
MFGRLSRPSS CLLLLFLIFS DHPTIAGTSI PGMAARVLKR ARRAKQSREF LYAHNIGRES 60 SGVPPFGWDK GLARFAYKWA NQRKRDCSMI HSGGPYGDNI FWYREKKTWS PEKVVTRWYE 120 ERFNYDSRTN TCVSGEMCGH YTQIVWRATT TVGCARVKCN DSRGYLVETA KTLTSTAGFE 180 PARAKPNRFQ IIIIKDVKDR HDASTNSGGK IEAKPTPHNL THTNFLARHV DFPPFSLLLL 240 PFISLKTLSL SELQKPMSSS PSRTPTSAAE APAPSSSTST DAVAEGSSKK VRKPYTITKS 300 RESWTEEEHD KFLEALQLFD RDWKKIEDFV GSKTVIQIRS HAQKYFLKVQ KNGTLAHVPP 360 PRPKRKAAHP YPQKASKNAQ MQLQVSTSFT TRNSDMPGLY TSWDDASMLL NRVISPQQEL 420 ATLPGAEGML FRLFLLNRLH IRTFHVLIMA YNATDSADIG SKGILNVSSP STSGMGSSSR 480 TISGSEIVVK QPKQPPLLQG VPDFAEVYNF IGSVFDPETR GHVEKLKEMD PINFETVLLL 540 MRNLTVNLSN PDFESARKVL SSYEVNTELP SVTTGSFVQN STSDKSS

Sequence ? help Back to Top

Protein Sequence Length: 587 aa Download sequence Send to blast

MFGRLSRPSS CLLLLFLIFS DHPTIAGTSI PGMAARVLKR ARRAKQSREF LYAHNIGRES  60
SGVPPFGWDK GLARFAYKWA NQRKRDCSMI HSGGPYGDNI FWYREKKTWS PEKVVTRWYE  120
ERFNYDSRTN TCVSGEMCGH YTQIVWRATT TVGCARVKCN DSRGYLVETA KTLTSTAGFE  180
PARAKPNRFQ IIIIKDVKDR HDASTNSGGK IEAKPTPHNL THTNFLARHV DFPPFSLLLL  240
PFISLKTLSL SELQKPMSSS PSRTPTSAAE APAPSSSTST DAVAEGSSKK VRKPYTITKS  300
RESWTEEEHD KFLEALQLFD RDWKKIEDFV GSKTVIQIRS HAQKYFLKVQ KNGTLAHVPP  360
PRPKRKAAHP YPQKASKNAQ MQLQVSTSFT TRNSDMPGLY TSWDDASMLL NRVISPQQEL  420
ATLPGAEGML FRLFLLNRLH IRTFHVLIMA YNATDSADIG SKGILNVSSP STSGMGSSSR  480
TISGSEIVVK QPKQPPLLQG VPDFAEVYNF IGSVFDPETR GHVEKLKEMD PINFETVLLL  540
MRNLTVNLSN PDFESARKVL SSYEVNTELP SVTTGSFVQN STSDKSS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1cfe_A	6e-24	48	161	5	114	PATHOGENESIS-RELATED PROTEIN P14A
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional activator of evening element (EE)-containing clock-controlled genes. Forms a negative feedback loop with APRR5. Regulates the pattern of histone H3 acetylation of the TOC1 promoter. {ECO:0000269\|PubMed:21205033, ECO:0000269\|PubMed:21474993, ECO:0000269\|PubMed:21483796, ECO:0000269\|PubMed:23638299}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00338	DAP	Transfer from AT3G09600	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	676765096

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Circadian-regulation. Peak of expression in the afternoon. Down-regulated by cold. {ECO:0000269\|PubMed:21205033, ECO:0000269\|PubMed:22902701, ECO:0000269\|PubMed:23638299}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AJ937213	1e-143	AJ937213.1 Arabidopsis thaliana mRNA for myb transcription factor LHY-CCA1-like5 (lcl5 gene), variant 1.
GenBank	AY091106	1e-143	AY091106.1 Arabidopsis thaliana unknown protein (At3g09600) mRNA, complete cds.
GenBank	AY122969	1e-143	AY122969.1 Arabidopsis thaliana unknown protein (At3g09600) mRNA, complete cds.
GenBank	AY550307	1e-143	AY550307.1 Arabidopsis thaliana MYB transcription factor (At3g09600) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013638230.1	0.0	PREDICTED: protein REVEILLE 8 isoform X1
Swissprot	Q8RWU3	1e-177	RVE8_ARATH; Protein REVEILLE 8
TrEMBL	M4ELV8	0.0	M4ELV8_BRARP; Uncharacterized protein
STRING	Bra029778.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM9303	26	33

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G09600.1	1e-141	MYB_related family protein

Publications ? help Back to Top
Manfield IW, et al. Arabidopsis Co-expression Tool (ACT): web server tools for microarray-based gene expression analysis. Nucleic Acids Res., 2006. 34(Web Server issue): p. W504-9 [PMID:16845059] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Fogelmark K,Troein C Rethinking transcriptional activation in the Arabidopsis circadian clock. PLoS Comput. Biol., 2014. 10(7): p. e1003705 [PMID:25033214] Xing H, et al. LNK1 and LNK2 recruitment to the evening element require morning expressed circadian related MYB-like transcription factors. Plant Signal Behav, 2015. 10(3): p. e1010888 [PMID:25848708] Gray JA,Shalit-Kaneh A,Chu DN,Hsu PY,Harmer SL The REVEILLE Clock Genes Inhibit Growth of Juvenile and Adult Plants by Control of Cell Size. Plant Physiol., 2017. 173(4): p. 2308-2322 [PMID:28254761]