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

Ciclev10006374m

Common Name

CICLE_v10006165mg

Organism

Citrus clementina

Taxonomic ID

85681

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: 73aa MW: 8471.53 Da PI: 8.5458

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Ciclev10006374m	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	23	1.8e-07	4	51	3	46
SS-HHHHHHHHHHHHHTTTT-HHHHHHHHT....TTS-HHHHHHHHHH CS Myb_DNA-binding 3 rWTteEdellvdavkqlGggtWktIartmg....kgRtlkqcksrwqk 46 +W++ E + l +v+++G g+W+ I r ++Rt k++ +rw k Ciclev10006374m 4 AWSEKELDALWVGVRRHGQGNWACILRDSTlkfsEHRTSKDLSERWEK 51 8*********************************************76 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50090	7.155	1	53	IPR017877	Myb-like domain
Gene3D	G3DSA:1.10.10.60	1.6E-8	4	54	IPR009057	Homeodomain-like
SuperFamily	SSF46689	3.82E-11	4	54	IPR009057	Homeodomain-like
Pfam	PF13921	4.5E-5	5	58	No hit	No description
CDD	cd11660	4.73E-11	5	49	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 73 aa Download sequence Send to blast
MMEAWSEKEL DALWVGVRRH GQGNWACILR DSTLKFSEHR TSKDLSERWE KEVRQISMIE 60 SSRSRTNSLF GS*

Functional Description ? help Back to Top
Source	Description
UniProt	Chromatin-remodeling protein that binds DNA through histones and regulates gene transcription. May specifically recognize and bind trimethylated 'Lys-27' (H3K27me3) and non-methylated 'Lys-4' of histone H3 (By similarity). Probable chromatin remodeling factor. {ECO:0000250\|UniProtKB:Q8TDI0, ECO:0000303\|PubMed:16547115}.

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_008795790.1	2e-19	protein CHROMATIN REMODELING 4-like isoform X1
Refseq	XP_008795791.1	2e-19	protein CHROMATIN REMODELING 4-like isoform X1
Refseq	XP_008795792.1	1e-19	protein CHROMATIN REMODELING 4-like isoform X2
Refseq	XP_008795793.1	1e-19	protein CHROMATIN REMODELING 4-like isoform X3
Swissprot	F4KBP5	6e-17	CHR4_ARATH; Protein CHROMATIN REMODELING 4
TrEMBL	V4RML1	2e-44	V4RML1_9ROSI; Uncharacterized protein
STRING	XP_006493799.1	8e-37	(Citrus sinensis)
STRING	XP_006422272.1	4e-39	(Citrus clementina)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G72740.2	8e-09	MYB_related family protein

Link Out ? help Back to Top
Phytozome	Ciclev10006374m
Entrez Gene	18031647

Publications ? help Back to Top
Kerschen A,Napoli CA,Jorgensen RA,Müller AE Effectiveness of RNA interference in transgenic plants. FEBS Lett., 2004. 566(1-3): p. 223-8 [PMID:15147899] Shaked H,Avivi-Ragolsky N,Levy AA Involvement of the Arabidopsis SWI2/SNF2 chromatin remodeling gene family in DNA damage response and recombination. Genetics, 2006. 173(2): p. 985-94 [PMID:16547115] Chen IP,Mannuss A,Orel N,Heitzeberg F,Puchta H A homolog of ScRAD5 is involved in DNA repair and homologous recombination in Arabidopsis. Plant Physiol., 2008. 146(4): p. 1786-96 [PMID:18310306] Tran MK,Schultz CJ,Baumann U Conserved upstream open reading frames in higher plants. BMC Genomics, 2008. 9: p. 361 [PMID:18667093] Xu R,Zhang S,Huang J,Zheng C Genome-wide comparative in silico analysis of the RNA helicase gene family in Zea mays and Glycine max: a comparison with Arabidopsis and Oryza sativa. PLoS ONE, 2013. 8(11): p. e78982 [PMID:24265739]