PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Triticodae; Triticeae; Triticinae; Triticum

Family

C3H

Protein Properties

Length: 78aa MW: 8993.73 Da PI: 8.2161

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Traes_1BL_0FD62B7F8.1	genome	IWGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	48.1	1.9e-15	2	27	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 yktelC+ + +tG C yGd+C+FaHg Traes_1BL_0FD62B7F8.1 2 YKTELCNKWEETGACLYGDQCQFAHG 27 9************************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	15.309	1	29	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	4.32E-11	1	33	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	6.1E-9	1	28	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	5.7E-18	1	33	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	7.2E-12	2	27	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.2E-5	35	56	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: 78 aa Download sequence Send to blast
MYKTELCNKW EETGACLYGD QCQFAHGIAE LRPIIRHPRY KTQVCRMVIG GGLCPYXXXX 60 XXXRHSITPA DYIPLLHP

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1rgo_A	6e-20	2	56	4	58	Butyrate response factor 2
Search in ModeBase

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC098571	1e-57	AC098571.2 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OJ1126_B10, complete sequence.
GenBank	AC098832	1e-57	AC098832.3 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OJ1268_B08, complete sequence.
GenBank	AK106354	1e-57	AK106354.1 Oryza sativa Japonica Group cDNA clone:002-102-A03, full insert sequence.
GenBank	AP014961	1e-57	AP014961.1 Oryza sativa Japonica Group DNA, chromosome 5, cultivar: Nipponbare, complete sequence.
GenBank	CP012613	1e-57	CP012613.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_020179183.1	3e-42	zinc finger CCCH domain-containing protein 39-like
Swissprot	Q6L5G1	1e-35	C3H39_ORYSJ; Zinc finger CCCH domain-containing protein 39
TrEMBL	A0A452ZZI9	1e-43	A0A452ZZI9_AEGTS; Uncharacterized protein
STRING	Traes_1BL_0FD62B7F8.1	5e-46	(Triticum aestivum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP2775	37	84

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G66810.1	2e-33	C3H family protein

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Cheng CH, et al. A fine physical map of the rice chromosome 5. Mol. Genet. Genomics, 2005. 274(4): p. 337-45 [PMID:16261349] Brenchley R, et al. Analysis of the bread wheat genome using whole-genome shotgun sequencing. Nature, 2012. 491(7426): p. 705-10 [PMID:23192148]