PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

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: 773aa MW: 84811.8 Da PI: 5.3701

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
676717808	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	37.3	6.4e-12	54	98	1	47
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 r +WT+ E++++++a +++ + Wk+I +g +t q++s+ qky 676717808 54 RESWTEGEHDKFLEALQLFDRD-WKKIEDFVG-SKTVIQIRSHAQKY 98 789***************77.*****.***********9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	8.22E-16	48	104	IPR009057	Homeodomain-like
PROSITE profile	PS51294	14.942	49	103	IPR017930	Myb domain
Gene3D	G3DSA:1.10.10.60	1.1E-5	52	104	IPR009057	Homeodomain-like
TIGRFAMs	TIGR01557	8.7E-18	52	101	IPR006447	Myb domain, plants
SMART	SM00717	7.6E-10	53	101	IPR001005	SANT/Myb domain
Pfam	PF00249	1.1E-9	54	98	IPR001005	SANT/Myb domain
CDD	cd00167	6.86E-7	56	99	No hit	No description
Pfam	PF10018	4.9E-7	486	640	IPR019258	Mediator complex, subunit Med4

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006357	Biological Process	regulation of transcription from RNA polymerase II promoter
GO:0016592	Cellular Component	mediator complex
GO:0001104	Molecular Function	RNA polymerase II transcription cofactor activity
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 773 aa Download sequence Send to blast
MTSSLSSNPV VAEERPTETS TDLTETTTTT TTVTEAAEAP EKKVRKAYTI TKSRESWTEG 60 EHDKFLEALQ LFDRDWKKIE DFVGSKTVIQ IRSHAQKYFL KVQKNGTLAH VPPPRPKRKA 120 AHPYPQKASK NVVMESNDST SGASPSASGV GNSSRTLSDS QCLRPANQTP SMHGLPDFAE 180 VYNFIGSVFD PDSKGRMKKL KEMDPINFET VLLLMRNLTV NLANPDFEPA VSVKLIITSM 240 LVGLCHAGPL VKSQTSDISY CGLLAHNNCL SAIKCCLRLL FEENITEQEG NIAVSVRTSS 300 VNGRYIFIFV NVCFSSIFRE FLFECTFNLR SPLFTGYSPA AKMLQHQIVQ SPARLGLTGP 360 GSPSVQNQTP SRHGHPTSSS SSQSQHQQIQ QPPNLLPPSS AVSTALASTS AAVSSSALLS 420 LLPPLPRAQA LLQQMAVLTS KLFDVSPNRA LWLSAFRGSL PTFLSSHSLP PPPPLENPNP 480 SSTKEILSQF NSLQTQLFEA VTELQEILDL QDAKQKVARE VKSKDASLLA FANKLKEAER 540 VLDMLVDDYS DYRKPKRSKT AREEEEEEEE DDDNESSSSS SVTTTVSSQL KLKDILAYAH 600 KVSYTTFAPP EFGAGQAPLR GALPPAPQDE QMRASQLYAF ADLDIGLPKA VENIEKKVEA 660 LIEPPPPPET VNLSAIQDLL PTNIAVPSGW KPGMPVELPK DWRLPPPGWK PGDPVVLPPD 720 SIPAPRPPQE QQQMRPPLHR PPDVIHVRDV QLDILEDDSS EYSSDDASSD DED

Sequence ? help Back to Top

Protein Sequence Length: 773 aa Download sequence Send to blast

MTSSLSSNPV VAEERPTETS TDLTETTTTT TTVTEAAEAP EKKVRKAYTI TKSRESWTEG  60
EHDKFLEALQ LFDRDWKKIE DFVGSKTVIQ IRSHAQKYFL KVQKNGTLAH VPPPRPKRKA  120
AHPYPQKASK NVVMESNDST SGASPSASGV GNSSRTLSDS QCLRPANQTP SMHGLPDFAE  180
VYNFIGSVFD PDSKGRMKKL KEMDPINFET VLLLMRNLTV NLANPDFEPA VSVKLIITSM  240
LVGLCHAGPL VKSQTSDISY CGLLAHNNCL SAIKCCLRLL FEENITEQEG NIAVSVRTSS  300
VNGRYIFIFV NVCFSSIFRE FLFECTFNLR SPLFTGYSPA AKMLQHQIVQ SPARLGLTGP  360
GSPSVQNQTP SRHGHPTSSS SSQSQHQQIQ QPPNLLPPSS AVSTALASTS AAVSSSALLS  420
LLPPLPRAQA LLQQMAVLTS KLFDVSPNRA LWLSAFRGSL PTFLSSHSLP PPPPLENPNP  480
SSTKEILSQF NSLQTQLFEA VTELQEILDL QDAKQKVARE VKSKDASLLA FANKLKEAER  540
VLDMLVDDYS DYRKPKRSKT AREEEEEEEE DDDNESSSSS SVTTTVSSQL KLKDILAYAH  600
KVSYTTFAPP EFGAGQAPLR GALPPAPQDE QMRASQLYAF ADLDIGLPKA VENIEKKVEA  660
LIEPPPPPET VNLSAIQDLL PTNIAVPSGW KPGMPVELPK DWRLPPPGWK PGDPVVLPPD  720
SIPAPRPPQE QQQMRPPLHR PPDVIHVRDV QLDILEDDSS EYSSDDASSD DED

Functional Description ? help Back to Top
Source	Description
UniProt	Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors (By similarity). {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	676717808

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_009122747.1	0.0	PREDICTED: mediator of RNA polymerase II transcription subunit 4
Swissprot	Q9LZ00	1e-179	MED4_ARATH; Mediator of RNA polymerase II transcription subunit 4
TrEMBL	A0A0D3EI91	0.0	A0A0D3EI91_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6EQD7	0.0	A0A3P6EQD7_BRAOL; Uncharacterized protein
STRING	Bo9g183320.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM9487	4	4

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G02840.3	2e-96	LHY/CCA1-like 1

Publications ? help Back to Top
Mathur S,Vyas S,Kapoor S,Tyagi AK The Mediator complex in plants: structure, phylogeny, and expression profiling of representative genes in a dicot (Arabidopsis) and a monocot (rice) during reproduction and abiotic stress. Plant Physiol., 2011. 157(4): p. 1609-27 [PMID:22021418] Li W, et al. SAD1, an RNA polymerase I subunit A34.5 of rice, interacts with Mediator and controls various aspects of plant development. Plant J., 2015. 81(2): p. 282-91 [PMID:25404280]