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

Carubv10000155m

Common Name

CARUB_v10000155mg

Organism

Capsella rubella

Taxonomic ID

81985

Taxonomic Lineage

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

Family

MYB

Protein Properties

Length: 956aa MW: 106732 Da PI: 5.0711

Description

MYB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10000155m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	56.3	7.3e-18	32	78	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 rg WT+eEde l +av+ + g++Wk+Ia+++ Rt+ qc +rwqk+l Carubv10000155m 32 RGQWTAEEDEVLRKAVHSFKGKNWKKIAEYFK-DRTDVQCLHRWQKVL 78 89***************************9.**********986 PP
2	Myb_DNA-binding	64.7	1.7e-20	84	130	1	48
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 +g+WT+eEde +v+++k++G++ W+tIar+++ gR +kqc++rw+++l Carubv10000155m 84 KGPWTKEEDEMIVQLIKKYGPKKWSTIARYLP-GRIGKQCRERWHNHL 130 79****************************.***********97 PP
3	Myb_DNA-binding	43	1e-13	136	178	1	45
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwq 45 + +WT+eE++ l++a++ +G++ W+ + ++ gR+++ +k++w+ Carubv10000155m 136 KEAWTQEEELVLIRAHQIYGNR-WAELTKFLP-GRSDNGIKNHWH 178 579*****************.*****.*********8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51294	18.899	27	78	IPR017930	Myb domain
SMART	SM00717	8.7E-15	31	80	IPR001005	SANT/Myb domain
Pfam	PF00249	1.2E-15	32	78	IPR001005	SANT/Myb domain
SuperFamily	SSF46689	2.66E-15	33	88	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	1.2E-23	34	89	IPR009057	Homeodomain-like
CDD	cd00167	2.18E-13	35	78	No hit	No description
PROSITE profile	PS51294	33.171	79	134	IPR017930	Myb domain
SuperFamily	SSF46689	2.7E-31	81	177	IPR009057	Homeodomain-like
SMART	SM00717	1.2E-19	83	132	IPR001005	SANT/Myb domain
Pfam	PF00249	3.5E-18	84	130	IPR001005	SANT/Myb domain
CDD	cd00167	2.97E-17	86	130	No hit	No description
Gene3D	G3DSA:1.10.10.60	4.0E-27	90	134	IPR009057	Homeodomain-like
PROSITE profile	PS51294	18.094	135	185	IPR017930	Myb domain
Gene3D	G3DSA:1.10.10.60	1.6E-19	135	185	IPR009057	Homeodomain-like
SMART	SM00717	1.5E-12	135	183	IPR001005	SANT/Myb domain
Pfam	PF00249	9.5E-12	136	178	IPR001005	SANT/Myb domain
CDD	cd00167	1.00E-9	138	178	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0032875	Biological Process	regulation of DNA endoreduplication
GO:0003677	Molecular Function	DNA binding
GO:0003713	Molecular Function	transcription coactivator activity

Sequence ? help Back to Top
Protein Sequence Length: 956 aa Download sequence Send to blast
MESESTTIST PQEGIPKSRH GRTSGPARRS TRGQWTAEED EVLRKAVHSF KGKNWKKIAE 60 YFKDRTDVQC LHRWQKVLNP ELVKGPWTKE EDEMIVQLIK KYGPKKWSTI ARYLPGRIGK 120 QCRERWHNHL NPAINKEAWT QEEELVLIRA HQIYGNRWAE LTKFLPGRSD NGIKNHWHSS 180 VKKKLDSYMS SGLLDQYQAI PLAPYERSST LESAFMQSNI DGNGCLSGQA EKEIDSRQSS 240 SMIGCSLSAG DFPNGPINME HHFYPCGNSQ ETEQAVYHPE QYFYPELEDI SVSISEVSYD 300 MEDCSQFPDH NVSTSPSQDY HFDFQELSEI SLEMRQNMSE VPMPYTQESK EPTLGATNST 360 SYIDVATYTS SANVLTPETE CCRVLFPDQE SEGQSVSRSL TQEPNEVDQS DSRDPSLCTS 420 ASDSQISEAT KSPMQSSSSR SIATAASGKE TLRPAPLIIS PDKYAKKPSR LICHPFEAEP 480 KCTTNGNGSF ICINDPSSST CVDGGTSNPG EEDQSYHVND SKKLVAVSDF ASLSEDRPHS 540 LPRHEENTTS EQDHEDMGAS SSLGFPSLDL PVFSCDLLQS KNDPLHDYSP LGIRKLLMST 600 MTCMSPLRLW ESPTGKKTLV GTKSILRKRT RDLLTPLSEK RSDKKLETDI AASLAKDFSR 660 LDVMFDESEN RESISGNITG VILGDRESGG EGEENWKPSS LFSHRMLEET MHIRKSFEKT 720 CIEANVREKD GSEANVENAE SISGVLSEHN TCKSVLTSPG QSVTKAEKAH VLTPRNQFQK 780 TFMATSNKEQ HSSSSLCLVI NSPSRARNAE GHLVDNETSN ENFSIFCGTP FRRGLESPSA 840 WKSPFYVNSL LPSPRFDTEI TIEDMGYIFS PGERSYESLG VMTQLNEHAS AFAAFTDAME 900 VSISPTNDNA EQKKELNKEN NDPLLAERRV LDFNDCESPI KATEEVSSYL LKGCR*

Sequence ? help Back to Top

Protein Sequence Length: 956 aa Download sequence Send to blast

MESESTTIST PQEGIPKSRH GRTSGPARRS TRGQWTAEED EVLRKAVHSF KGKNWKKIAE  60
YFKDRTDVQC LHRWQKVLNP ELVKGPWTKE EDEMIVQLIK KYGPKKWSTI ARYLPGRIGK  120
QCRERWHNHL NPAINKEAWT QEEELVLIRA HQIYGNRWAE LTKFLPGRSD NGIKNHWHSS  180
VKKKLDSYMS SGLLDQYQAI PLAPYERSST LESAFMQSNI DGNGCLSGQA EKEIDSRQSS  240
SMIGCSLSAG DFPNGPINME HHFYPCGNSQ ETEQAVYHPE QYFYPELEDI SVSISEVSYD  300
MEDCSQFPDH NVSTSPSQDY HFDFQELSEI SLEMRQNMSE VPMPYTQESK EPTLGATNST  360
SYIDVATYTS SANVLTPETE CCRVLFPDQE SEGQSVSRSL TQEPNEVDQS DSRDPSLCTS  420
ASDSQISEAT KSPMQSSSSR SIATAASGKE TLRPAPLIIS PDKYAKKPSR LICHPFEAEP  480
KCTTNGNGSF ICINDPSSST CVDGGTSNPG EEDQSYHVND SKKLVAVSDF ASLSEDRPHS  540
LPRHEENTTS EQDHEDMGAS SSLGFPSLDL PVFSCDLLQS KNDPLHDYSP LGIRKLLMST  600
MTCMSPLRLW ESPTGKKTLV GTKSILRKRT RDLLTPLSEK RSDKKLETDI AASLAKDFSR  660
LDVMFDESEN RESISGNITG VILGDRESGG EGEENWKPSS LFSHRMLEET MHIRKSFEKT  720
CIEANVREKD GSEANVENAE SISGVLSEHN TCKSVLTSPG QSVTKAEKAH VLTPRNQFQK  780
TFMATSNKEQ HSSSSLCLVI NSPSRARNAE GHLVDNETSN ENFSIFCGTP FRRGLESPSA  840
WKSPFYVNSL LPSPRFDTEI TIEDMGYIFS PGERSYESLG VMTQLNEHAS AFAAFTDAME  900
VSISPTNDNA EQKKELNKEN NDPLLAERRV LDFNDCESPI KATEEVSSYL LKGCR*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1h88_C	1e-68	32	185	6	159	MYB PROTO-ONCOGENE PROTEIN
1h89_C	1e-68	32	185	6	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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00505	DAP	Transfer from AT5G11510	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10000155m

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	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AF371975	0.0	AF371975.2 Arabidopsis thaliana putative c-myb-like transcription factor MYB3R-4 (MYB3R4) mRNA, complete cds.
GenBank	AY519650	0.0	AY519650.1 Arabidopsis thaliana MYB transcription factor (At5g11510) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006287007.1	0.0	transcription factor MYB3R-4
Refseq	XP_023637051.1	0.0	transcription factor MYB3R-4
Refseq	XP_023637052.1	0.0	transcription factor MYB3R-4
Swissprot	Q94FL9	0.0	MB3R4_ARATH; Transcription factor MYB3R-4
TrEMBL	R0H5A0	0.0	R0H5A0_9BRAS; Uncharacterized protein
STRING	XP_006287007.1	0.0	(Capsella rubella)

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
AT5G11510.1	0.0	myb domain protein 3r-4

Link Out ? help Back to Top
Phytozome	Carubv10000155m
Entrez Gene	17881760

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]