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: 149aa MW: 16593 Da PI: 9.2823

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Traes_1AL_501B5BEAE.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	49.8	5.6e-16	74	99	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 +ktelC+ + +tG C+yGd+C+FaHg Traes_1AL_501B5BEAE.1 74 FKTELCNKWEETGACPYGDQCQFAHG 99 79***********************8 PP
2	zf-CCCH	18.2	4.5e-06	112	137	1	26
--S---SGGGGTS..--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartG..tCkyGdrCkFaHg 26 ykt Cr + G +C+yG rC+F H+ Traes_1AL_501B5BEAE.1 112 YKTQVCR--MVIGgaICPYGHRCHFRHS 137 8999999..999999**********997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1000.10	7.1E-19	69	105	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	4.71E-11	71	105	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.7E-9	73	100	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.863	73	101	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.4E-13	74	99	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	9.1E-11	106	138	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.14E-8	107	139	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	7.2E-4	111	138	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	11.92	111	139	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: 149 aa Download sequence Send to blast
MPKSISIRSN GYLKMDRNGK HRVTAPVNVG SQRVFVGVDG AKAEEHQGRG GEKGGQVATA 60 ADRLQFEVYS QGMFKTELCN KWEETGACPY GDQCQFAHGI AELRPIIRHP RYKTQVCRMV 120 IGGAICPYGH RCHFRHSITP ADYIPLLHP

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1rgo_A	1e-22	74	137	4	67	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	6e-95	AC098571.2 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OJ1126_B10, complete sequence.
GenBank	AC098832	6e-95	AC098832.3 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OJ1268_B08, complete sequence.
GenBank	AK106354	6e-95	AK106354.1 Oryza sativa Japonica Group cDNA clone:002-102-A03, full insert sequence.
GenBank	AP014961	6e-95	AP014961.1 Oryza sativa Japonica Group DNA, chromosome 5, cultivar: Nipponbare, complete sequence.
GenBank	CP012613	6e-95	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_020179184.1	5e-95	zinc finger CCCH domain-containing protein 39-like
Swissprot	Q6L5G1	7e-74	C3H39_ORYSJ; Zinc finger CCCH domain-containing protein 39
TrEMBL	A0A3B5Y6N7	1e-104	A0A3B5Y6N7_WHEAT; Uncharacterized protein
STRING	Traes_1AL_501B5BEAE.1	1e-109	(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	1e-50	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]