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

Cc01_g21680

Common Name

GSCOC_T00004951001

Organism

Coffea canephora

Taxonomic ID

49390

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Rubiaceae; Ixoroideae; Coffeeae; Coffea

Family

MYB_related

Protein Properties

Length: 463aa MW: 51620.7 Da PI: 9.6066

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cc01_g21680	genome	CGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	24.1	8.4e-08	142	183	4	46
S-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS Myb_DNA-binding 4 WTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 WT+eE + l d+++++ + + Ia ++++ Rt +++ksr+++ Cc01_g21680 142 WTKEETDELFDLCERFDLR-FIVIADRFPTSRTVEELKSRYYS 183 *****************.*******************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF16282	1.6E-31	114	188	IPR032563	DAMP1, SANT/Myb-like domain
SuperFamily	SSF46689	3.02E-6	137	187	IPR009057	Homeodomain-like
SMART	SM00717	3.7E-6	138	187	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	8.0E-6	141	186	IPR009057	Homeodomain-like
CDD	cd11658	7.59E-19	142	185	No hit	No description
Pfam	PF05499	3.9E-7	328	400	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: 463 aa Download sequence Send to blast
MDAKDILLGL PKPTTTPTPH GHQLLPLPAD KKSRPPKESQ RKPDGISREV YALTGGLAPL 60 MPSVDVNHLK RRAQSENEKI TWQWLPFTSS ARKDNLQLYH WVRVVNGVPP SGDYSFAKYN 120 KSVDVIKYTD DEYEKHLTDP MWTKEETDEL FDLCERFDLR FIVIADRFPT SRTVEELKSR 180 YYSVCRAILI ARAPAPGDIA GHPLVKDPYN ISQDVERKRA LSMVLSQTKQ QERRDAEVLA 240 EAKRISEARK AAKGTDELEV PAMTDTVPDD NDGAAAAVDS LSPSPNAQFT SGAIAPPVSE 300 IASTLASLRM MRVYLRTHAL EQMVQAASSS AGLRTIKRVE QTLQDLGVNL KPKVPTKAVC 360 AEHLELRKEI LTLLNLQKQL QYKEAEGSSY RDGLYAETPG TPPKRVQRAV EQDRTFVPDS 420 FSFGGERMGK RDQKRKAPGR LLEGPPSPAQ SKRPRKFKAS DG*

Sequence ? help Back to Top

Protein Sequence Length: 463 aa Download sequence Send to blast

MDAKDILLGL PKPTTTPTPH GHQLLPLPAD KKSRPPKESQ RKPDGISREV YALTGGLAPL  60
MPSVDVNHLK RRAQSENEKI TWQWLPFTSS ARKDNLQLYH WVRVVNGVPP SGDYSFAKYN  120
KSVDVIKYTD DEYEKHLTDP MWTKEETDEL FDLCERFDLR FIVIADRFPT SRTVEELKSR  180
YYSVCRAILI ARAPAPGDIA GHPLVKDPYN ISQDVERKRA LSMVLSQTKQ QERRDAEVLA  240
EAKRISEARK AAKGTDELEV PAMTDTVPDD NDGAAAAVDS LSPSPNAQFT SGAIAPPVSE  300
IASTLASLRM MRVYLRTHAL EQMVQAASSS AGLRTIKRVE QTLQDLGVNL KPKVPTKAVC  360
AEHLELRKEI LTLLNLQKQL QYKEAEGSSY RDGLYAETPG TPPKRVQRAV EQDRTFVPDS  420
FSFGGERMGK RDQKRKAPGR LLEGPPSPAQ SKRPRKFKAS DG*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3hm5_A	1e-21	113	197	4	91	DNA methyltransferase 1-associated protein 1
4iej_A	1e-21	113	197	4	91	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_027099690.1	0.0	SWR1-complex protein 4-like
Refseq	XP_027183094.1	0.0	SWR1-complex protein 4
Swissprot	Q8VZL6	0.0	SWC4_ARATH; SWR1-complex protein 4
TrEMBL	A0A068V8C6	0.0	A0A068V8C6_COFCA; Uncharacterized protein
STRING	PGSC0003DMT400023383	0.0	(Solanum tuberosum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA7626	15	15

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]