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

676783722

Organism

Sisymbrium irio

Taxonomic ID

3730

Taxonomic Lineage

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

Family

C3H

Protein Properties

Length: 125aa MW: 14793.2 Da PI: 4.9287

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
676783722	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	30.7	5.2e-10	21	45	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 ++ C+f++rtG C yG++C+++H++ 676783722 21 EKDCQFYLRTGRCGYGESCCYNHPK 45 679********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	13.939	18	46	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.1E-4	20	45	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.75E-5	20	45	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.3E-7	21	45	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.2E-4	24	43	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	44	46	64	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	9.028	47	65	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 125 aa Download sequence Send to blast
MTKENETGRA ESSEFPVPPN EKDCQFYLRT GRCGYGESCC YNHPKYFLRG CCRFGSDCAY 60 DHSKEGDDTE SMRQAKTIEN ERIESKYNLQ EENLREKQEY DNDQQNLEEQ RKKDIQRQGR 120 GERLV

Functional Description ? help Back to Top
Source	Description
UniProt	Possesses RNA-binding and ribonuclease activities in vitro. {ECO:0000269\|PubMed:18582464}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	676783722

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_013639475.1	9e-37	PREDICTED: putative zinc finger CCCH domain-containing protein 9
Swissprot	Q94AD9	6e-14	C3H3_ARATH; Zinc finger CCCH domain-containing protein 3
TrEMBL	M4EU46	2e-38	M4EU46_BRARP; Uncharacterized protein
STRING	Bra032328.1-P	4e-39	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM15746	9	14

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G04990.2	3e-16	C3H family protein

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546]