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

RrC2377_p4

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

MYB

Protein Properties

Length: 758aa MW: 84923.2 Da PI: 6.8484

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC2377_p4	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	31.9	3.1e-10	18	58	9	48
HHHHHHHHHHTTTT-HHHHHHHHT.TTS-HHHHHHHHHHHT CS Myb_DNA-binding 9 dellvdavkqlGggtWktIartmg.kgRtlkqcksrwqkyl 48 de+l++av+ + g++Wk+I + k Rt+ qc +rwqk+l RrC2377_p4 18 DEILKKAVHNFKGKNWKKIGKSEYfKDRTDVQCLHRWQKVL 58 9****************9998899**********986 PP
2	Myb_DNA-binding	63.3	4.9e-20	64	110	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 +g+WT+eEd+ +v++++++G++ W+tIar+++ gR +kqc++rw+++l RrC2377_p4 64 KGPWTKEEDDMIVQLIQKYGPKKWSTIARYLP-GRIGKQCRERWHNHL 110 79****************************.***********97 PP
3	Myb_DNA-binding	42.4	1.6e-13	116	158	1	45
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwq 45 + +WT+eE++ l++a++ +G++ W+ + ++ gR+++ +k++w+ RrC2377_p4 116 KEAWTQEEELVLIRAHQVYGNR-WAELTKFLP-GRSDNGIKNHWH 158 579*****************.*****.*********8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	8.034	1	58	IPR017930	Myb domain
SMART	SM00717	0.28	9	60	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	9.2E-19	17	69	IPR009057	Homeodomain-like
SuperFamily	SSF46689	4.45E-11	17	73	IPR009057	Homeodomain-like
CDD	cd00167	3.50E-7	18	58	No hit	No description
Pfam	PF00249	4.2E-7	18	58	IPR001005	SANT/Myb domain
PROSITE profile	PS51294	32.274	59	114	IPR017930	Myb domain
SuperFamily	SSF46689	2.35E-31	61	157	IPR009057	Homeodomain-like
SMART	SM00717	4.9E-19	63	112	IPR001005	SANT/Myb domain
Pfam	PF00249	3.6E-18	64	110	IPR001005	SANT/Myb domain
CDD	cd00167	1.58E-16	66	110	No hit	No description
Gene3D	G3DSA:1.10.10.60	2.6E-27	70	114	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	1.1E-19	115	165	IPR009057	Homeodomain-like
PROSITE profile	PS51294	17.977	115	165	IPR017930	Myb domain
SMART	SM00717	4.0E-12	115	163	IPR001005	SANT/Myb domain
Pfam	PF00249	1.3E-11	116	158	IPR001005	SANT/Myb domain
CDD	cd00167	2.15E-9	118	158	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 758 aa Download sequence Send to blast
IQNKCAFLHP LIIHILQDEI LKKAVHNFKG KNWKKIGKSE YFKDRTDVQC LHRWQKVLNP 60 ELVKGPWTKE EDDMIVQLIQ KYGPKKWSTI ARYLPGRIGK QCRERWHNHL NPAINKEAWT 120 QEEELVLIRA HQVYGNRWAE LTKFLPGRSD NGIKNHWHSS VKKKLDSYMS SGLLDQYQAM 180 PLAPFERSST LQSAFMQSTI DELPMPYTKE SKETSLGASN STSNIDVATT TYTNSENISS 240 SETECCRILF LDQESEGLSV DQADYQDPVF SASASDSQIS EATKSPMQSS SSKSITTSAS 300 GKGTLRPAPL IISPDKYSKK SSGLICHHFE AGPNSRTDDR GGFITSANEG PNNSSEECQS 360 YHLNDSKKLV PVNDFASLAE VKPHSLLKQE PNTAVEQHHE DMGASSSLCF PSLDLPVFSS 420 DLLQSKNDPL HDYSPLGIRK LLMSTMTCIS PIRLWESPTG KKTLVGAKSI LRKRTRDLLT 480 PLSEKRSDKK LEIDIAASLA TDFSRLDVMF DESESRESKS LEKTEQTCLD ANVKEKEVEN 540 GQSLSGVLSE NNNTNKQVLS PSSQSVTKAE KGQVSTPRNN MQRTLMATSN KEQHSSASLC 600 LVINSPSRGR NTEGHLVDNE TSNQSFSIFC GTPFKRGLES PSAWKSPFYV NSLLHSPRFD 660 TDITIEDMDY IFSPVERSYG SRGLMTQRTE HTSAFAAFDA MEVSLSASNY DDARKMKEFD 720 KENNDPLLTE RRVLDFNDCE SPTKVTEAPS SYLLKGCR

Sequence ? help Back to Top

Protein Sequence Length: 758 aa Download sequence Send to blast

IQNKCAFLHP LIIHILQDEI LKKAVHNFKG KNWKKIGKSE YFKDRTDVQC LHRWQKVLNP  60
ELVKGPWTKE EDDMIVQLIQ KYGPKKWSTI ARYLPGRIGK QCRERWHNHL NPAINKEAWT  120
QEEELVLIRA HQVYGNRWAE LTKFLPGRSD NGIKNHWHSS VKKKLDSYMS SGLLDQYQAM  180
PLAPFERSST LQSAFMQSTI DELPMPYTKE SKETSLGASN STSNIDVATT TYTNSENISS  240
SETECCRILF LDQESEGLSV DQADYQDPVF SASASDSQIS EATKSPMQSS SSKSITTSAS  300
GKGTLRPAPL IISPDKYSKK SSGLICHHFE AGPNSRTDDR GGFITSANEG PNNSSEECQS  360
YHLNDSKKLV PVNDFASLAE VKPHSLLKQE PNTAVEQHHE DMGASSSLCF PSLDLPVFSS  420
DLLQSKNDPL HDYSPLGIRK LLMSTMTCIS PIRLWESPTG KKTLVGAKSI LRKRTRDLLT  480
PLSEKRSDKK LEIDIAASLA TDFSRLDVMF DESESRESKS LEKTEQTCLD ANVKEKEVEN  540
GQSLSGVLSE NNNTNKQVLS PSSQSVTKAE KGQVSTPRNN MQRTLMATSN KEQHSSASLC  600
LVINSPSRGR NTEGHLVDNE TSNQSFSIFC GTPFKRGLES PSAWKSPFYV NSLLHSPRFD  660
TDITIEDMDY IFSPVERSYG SRGLMTQRTE HTSAFAAFDA MEVSLSASNY DDARKMKEFD  720
KENNDPLLTE RRVLDFNDCE SPTKVTEAPS SYLLKGCR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1h88_C	3e-64	17	165	13	159	MYB PROTO-ONCOGENE PROTEIN
1h89_C	3e-64	17	165	13	159	MYB PROTO-ONCOGENE PROTEIN
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Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that binds 5'-AACGG-3' motifs in gene promoters (PubMed:21862669). Involved in the regulation of cytokinesis, probably via the activation of several G2/M phase-specific genes transcription (e.g. KNOLLE) (PubMed:17287251, PubMed:21862669, PubMed:25806785). Required for the maintenance of diploidy (PubMed:21862669). {ECO:0000269\|PubMed:17287251, ECO:0000269\|PubMed:21862669, ECO:0000269\|PubMed:25806785}.; FUNCTION: Involved in transcription regulation during induced endoreduplication at the powdery mildew (e.g. G.orontii) infection site, thus promoting G.orontii growth and reproduction. {ECO:0000269\|PubMed:20018666}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Slightly induced by salicylic acid (SA) (PubMed:16463103). Expressed in a cell cycle-dependent manner, with highest levels 2 hours before the peak of mitotic index in cells synchronized by aphidicolin. Activated by CYCB1 (PubMed:17287251). Accumulates at powdery mildew (e.g. G.orontii) infected cells. {ECO:0000269\|PubMed:16463103, ECO:0000269\|PubMed:17287251}.

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	AC232450	0.0	AC232450.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB010H02, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018491937.1	0.0	PREDICTED: myb-related protein 3R-1-like
Refseq	XP_018491938.1	0.0	PREDICTED: myb-related protein 3R-1-like
Swissprot	Q94FL9	0.0	MB3R4_ARATH; Transcription factor MYB3R-4
TrEMBL	A0A0D3B0M3	0.0	A0A0D3B0M3_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6A952	0.0	A0A3P6A952_BRAOL; Uncharacterized protein
STRING	Bo3g007070.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM13213	18	28

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G11510.2	1e-140	myb domain protein 3r-4

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Saito T, et al. Genetic interaction between G2/M phase-specific transcription factor MYB3R4 and MAPKKK ANP3 for execution of cytokinesis in Arabidopsis thaliana. Plant Signal Behav, 2015. 10(3): p. e990817 [PMID:25806785] Kobayashi K, et al. Transcriptional repression by MYB3R proteins regulates plant organ growth. EMBO J., 2015. 34(15): p. 1992-2007 [PMID:26069325] Chen P, et al. Arabidopsis R1R2R3-Myb proteins are essential for inhibiting cell division in response to DNA damage. Nat Commun, 2017. 8(1): p. 635 [PMID:28935922]