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

Csa05g001960.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

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

Family

MYB_related

Protein Properties

Length: 445aa MW: 50015.9 Da PI: 9.8333

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa05g001960.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	22.2	3.4e-07	132	174	3	46
SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS Myb_DNA-binding 3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 WT+eE ++l + ++ + + + Ia +++ Rt +++k+r+++ Csa05g001960.1 132 VWTKEETDQLFEFCQNFDLR-FVVIADRFPVSRTVEELKDRYYS 174 6*****************.*******************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF16282	6.4E-30	105	179	IPR032563	DAMP1, SANT/Myb-like domain
SMART	SM00717	9.5E-9	129	178	IPR001005	SANT/Myb domain
SuperFamily	SSF46689	1.39E-6	129	180	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	6.7E-6	132	175	IPR009057	Homeodomain-like
CDD	cd11658	3.29E-19	133	176	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0000812	Cellular Component	Swr1 complex
GO:0035267	Cellular Component	NuA4 histone acetyltransferase complex
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 445 aa Download sequence Send to blast
MGGTDAKDIL GLPKTPLSLT QEKKSRPQKE SHRKPDGISR EVYALTGGVA PLMPSIDVNQ 60 LKRRPPADEK VAWQWLPFTS SARKDDLKLY HWVRVVNNVP PTGDYSFAKY NKSVDILKYT 120 DEEYENHLTD PVWTKEETDQ LFEFCQNFDL RFVVIADRFP VSRTVEELKD RYYSVNRALL 180 RARAQSPADV ANHPLMKEPY DITRDRERKR ALSVLLSQSR HQEKKDAEIL AEAKRITEMR 240 LAARRAEEPV VSANENAGLD KADGVVPGSS VSPSSNSQLP ATAVAPSTLT MADYASTLAS 300 LRMLHVYLRT YGLEQMVQAA SSAVGLRTIK RVEQTLQDLG VNLKPKVPTK TVCDEHLELR 360 KEILTLLNLQ KQLQYKESEG SSHREGSFAA MPDTPKDRVF AADPFSFGAE RPIKKEQKRK 420 GPGRQADTPS PAHKRPRKMK ASDL*

Sequence ? help Back to Top

Protein Sequence Length: 445 aa Download sequence Send to blast

MGGTDAKDIL GLPKTPLSLT QEKKSRPQKE SHRKPDGISR EVYALTGGVA PLMPSIDVNQ  60
LKRRPPADEK VAWQWLPFTS SARKDDLKLY HWVRVVNNVP PTGDYSFAKY NKSVDILKYT  120
DEEYENHLTD PVWTKEETDQ LFEFCQNFDL RFVVIADRFP VSRTVEELKD RYYSVNRALL  180
RARAQSPADV ANHPLMKEPY DITRDRERKR ALSVLLSQSR HQEKKDAEIL AEAKRITEMR  240
LAARRAEEPV VSANENAGLD KADGVVPGSS VSPSSNSQLP ATAVAPSTLT MADYASTLAS  300
LRMLHVYLRT YGLEQMVQAA SSAVGLRTIK RVEQTLQDLG VNLKPKVPTK TVCDEHLELR  360
KEILTLLNLQ KQLQYKESEG SSHREGSFAA MPDTPKDRVF AADPFSFGAE RPIKKEQKRK  420
GPGRQADTPS PAHKRPRKMK ASDL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3hm5_A	2e-18	104	184	4	88	DNA methyltransferase 1-associated protein 1
4iej_A	2e-18	104	184	4	88	DNA methyltransferase 1-associated protein 1
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Component of the SWR1 complex which mediates the ATP-dependent exchange of histone H2A for the H2A variant HZT1 leading to transcriptional regulation of selected genes by chromatin remodeling. Component of the NuA4 histone acetyltransferase complex which is involved in transcriptional activation of selected genes principally by acetylation of nucleosomal histone H4 and H2A. {ECO:0000305\|Ref.5}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa05g001960.1

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	AY064024	0.0	AY064024.1 Arabidopsis thaliana unknown protein (At2g47210) mRNA, complete cds.
GenBank	AY096610	0.0	AY096610.1 Arabidopsis thaliana unknown protein (At2g47210) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010507917.1	0.0	PREDICTED: SWR1-complex protein 4
Swissprot	Q8VZL6	0.0	SWC4_ARATH; SWR1-complex protein 4
TrEMBL	A0A178VRI9	0.0	A0A178VRI9_ARATH; Uncharacterized protein
STRING	XP_010507917.1	0.0	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM8543	24	35

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G47210.1	0.0	MYB_related family protein

Publications ? help Back to Top
Gómez-Zambrano Á, et al. Arabidopsis SWC4 Binds DNA and Recruits the SWR1 Complex to Modulate Histone H2A.Z Deposition at Key Regulatory Genes. Mol Plant, 2018. 11(6): p. 815-832 [PMID:29604400]