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

orange1.1g013140m

Organism

Citrus sinensis

Taxonomic ID

2711

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus

Family

MYB_related

Protein Properties

Length: 450aa MW: 50450.4 Da PI: 9.793

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
orange1.1g013140m	genome	ICGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	21.7	4.7e-07	130	171	4	46
S-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS Myb_DNA-binding 4 WTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 WT+eE ++l ++++++ + + Ia +++ Rt +++k+r++ orange1.1g013140m 130 WTKEETDQLFELCERFDLR-FIVIADRFPSSRTVEELKDRYYV 171 *****************.*******************85 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF16282	7.7E-29	102	171	IPR032563	DAMP1, SANT/Myb-like domain
SMART	SM00717	2.9E-5	126	175	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	1.8E-5	129	170	IPR009057	Homeodomain-like
SuperFamily	SSF46689	1.95E-6	129	172	IPR009057	Homeodomain-like
CDD	cd11658	2.48E-18	130	170	No hit	No description
Pfam	PF05499	5.9E-7	319	381	IPR008468	DNA methyltransferase 1-associated 1

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0045892	Biological Process	negative regulation of transcription, DNA-templated
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: 450 aa Download sequence Send to blast
MDAKDILGIP KTQLPTTQEK KSRPQKEPQR KPDGISREVY ALTGGLAPLM PSIDVSQLKK 60 RPPSDEKITW QWLPFTNSAR KDNLQLYHWV RVVNGVPPTG DYSFAKYNKS VDVVKYTDEE 120 YEKYLTDPMW TKEETDQLFE LCERFDLRFI VIADRFPSSR TVEELKDRYY VSRAILIARA 180 PSPTDVSGHP LVKDPYNVSQ EVERKRALSM VLSQTKHQER KDAEVLAEAK RITDSRMASR 240 AAEEPEMPVA SHVGSESADR AVVLGDTVSP SSNIQLPSAT VVPSTSIIAD SASTLASLRM 300 LRVYLRTYAL EQMVQAASSS AGLRTIKRVE QALQELGVNL KPKVPTKAVC AEHLELRKEI 360 LTLLNLQKQL QYKEAEGSSY RDGSYIDMPG TPKRSQRAGD QDRTFVPESI NFGGERVGKR 420 DQKRKGPGRL SEAPSSPAHK RPRKKASDL*

Sequence ? help Back to Top

Protein Sequence Length: 450 aa Download sequence Send to blast

MDAKDILGIP KTQLPTTQEK KSRPQKEPQR KPDGISREVY ALTGGLAPLM PSIDVSQLKK  60
RPPSDEKITW QWLPFTNSAR KDNLQLYHWV RVVNGVPPTG DYSFAKYNKS VDVVKYTDEE  120
YEKYLTDPMW TKEETDQLFE LCERFDLRFI VIADRFPSSR TVEELKDRYY VSRAILIARA  180
PSPTDVSGHP LVKDPYNVSQ EVERKRALSM VLSQTKHQER KDAEVLAEAK RITDSRMASR  240
AAEEPEMPVA SHVGSESADR AVVLGDTVSP SSNIQLPSAT VVPSTSIIAD SASTLASLRM  300
LRVYLRTYAL EQMVQAASSS AGLRTIKRVE QALQELGVNL KPKVPTKAVC AEHLELRKEI  360
LTLLNLQKQL QYKEAEGSSY RDGSYIDMPG TPKRSQRAGD QDRTFVPESI NFGGERVGKR  420
DQKRKGPGRL SEAPSSPAHK RPRKKASDL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3hm5_A	6e-20	101	185	4	93	DNA methyltransferase 1-associated protein 1
4iej_A	6e-20	101	185	4	93	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}.

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_006492373.1	0.0	SWR1-complex protein 4 isoform X2
Refseq	XP_024043722.1	0.0	SWR1-complex protein 4 isoform X2
Swissprot	Q8VZL6	0.0	SWC4_ARATH; SWR1-complex protein 4
TrEMBL	V4U6K6	0.0	V4U6K6_9ROSI; Uncharacterized protein
STRING	XP_006492372.1	0.0	(Citrus sinensis)
STRING	XP_006444556.1	0.0	(Citrus clementina)

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

Link Out ? help Back to Top
Phytozome	orange1.1g013140m

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]