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

RrC164_p8

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

C3H

Protein Properties

Length: 186aa MW: 19332.5 Da PI: 6.509

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC164_p8	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	41.8	1.8e-13	92	117	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 +++ C++f+rtGtCkyG++Ck++H++ RrC164_p8 92 GQPVCQHFMRTGTCKYGASCKYHHPR 117 5799********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	1.3E-6	90	117	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	16.277	90	118	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.01E-7	91	117	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	5.1E-11	92	117	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.1E-6	95	117	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: 186 aa Download sequence Send to blast
MERYGRAGEE GPRSDPSIEW TSHGVQTRVE ASMWRLGLSG GGAGGGGGGG EAYPERSNEP 60 DRGAAFAGTV QDVVGGVRGG VGGDGALPER MGQPVCQHFM RTGTCKYGAS CKYHHPRQGG 120 GGSVAPVAGV RVVVYLSLWD DVASMFKGLI NSGNLYLNST PATKFYFDPT LQAISEFTAS 180 LEGTVG

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_013684449.1	8e-47	zinc finger CCCH domain-containing protein 34
Swissprot	Q9SQU4	1e-44	C3H34_ARATH; Zinc finger CCCH domain-containing protein 34
TrEMBL	A0A078F4X2	2e-45	A0A078F4X2_BRANA; BnaC03g34690D protein
TrEMBL	A0A3P6B8K9	2e-45	A0A3P6B8K9_BRAOL; Uncharacterized protein
STRING	Bo3g060560.1	4e-46	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM37458	2	2

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G06410.1	6e-38	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]