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

Rsa1.0_09693.1_g00002.1

Organism

Raphanus sativus

Taxonomic ID

3726

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: 198aa MW: 21039.5 Da PI: 6.1139

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_09693.1_g00002.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	34.1	4.5e-11	93	117	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 ++ C++f+rt tCkyG++Ck++H++ Rsa1.0_09693.1_g00002.1 93 QPVCQHFMRTETCKYGASCKYHHPR 117 689********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	14.202	90	118	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	5.5E-5	90	117	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.22E-6	92	117	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.3E-8	93	117	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.5E-5	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: 198 aa Download sequence Send to blast
MKRYSRAGEE GPRSDPSIEW TSHGVQTGVE ASMWRLGLSG GRAGGGGGGG EAYPERSNEP 60 DRGAAFAGTV QDVVGGVRGG VEGDGALPER IGQPVCQHFM RTETCKYGAS CKYHHPRQGG 120 GDSVAPVAGV FKEFGFCLLI EPRVVVYLSL WDDVASMFKG LINSGNLYLN STPATKFYFD 180 PTLQAISEFT ARLEGTVG

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	39	47	GGRAGGGGG

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_09693.1_g00002.1

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_013629268.1	2e-41	PREDICTED: bifunctional 3-dehydroquinate dehydratase/shikimate dehydrogenase, chloroplastic-like isoform X1
Refseq	XP_013629269.1	8e-42	PREDICTED: zinc finger CCCH domain-containing protein 34-like isoform X2
Refseq	XP_013684449.1	8e-42	zinc finger CCCH domain-containing protein 34
Swissprot	Q9SQU4	2e-40	C3H34_ARATH; Zinc finger CCCH domain-containing protein 34
TrEMBL	A0A078F4X2	2e-40	A0A078F4X2_BRANA; BnaC03g34690D protein
TrEMBL	A0A0D3B9Z3	2e-40	A0A0D3B9Z3_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6B8K9	2e-40	A0A3P6B8K9_BRAOL; Uncharacterized protein
STRING	Bo3g060560.1	3e-41	(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	2e-34	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]