PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

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

Family

C3H

Protein Properties

Length: 467aa MW: 49779.3 Da PI: 8.3668

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thhalv10013460m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	38.2	2.4e-12	53	78	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 +++ C +++rtG C yG+rC+F+H++ Thhalv10013460m 53 DEPDCIYYLRTGVCGYGSRCRFNHPR 78 6899********************96 PP
2	zf-CCCH	37.4	4.3e-12	100	124	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 ++ C++f+rtGtCk+G++Ck++H++ Thhalv10013460m 100 QPVCQHFLRTGTCKFGASCKYHHPR 124 789********************96 PP
3	zf-CCCH	39.8	7.4e-13	147	171	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++++C++++rtG+Ck+G++C+F+H+ Thhalv10013460m 147 GEKECSYYMRTGQCKFGSTCRFHHP 171 7899********************9 PP
4	zf-CCCH	39.5	9.6e-13	295	320	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 +++++C++f+rtG Ck+G +Ck++H+ Thhalv10013460m 295 PGQPECQYFMRTGDCKFGVSCKYHHP 320 5789*********************9 PP
5	zf-CCCH	34.7	3e-11	340	365	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 ++t+ C++fa+ G+Ck+G+ CkF H+ Thhalv10013460m 340 PGTAQCSHFAQHGICKFGPACKFDHS 365 689**********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	14.098	51	79	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.5E-4	51	78	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.0E-9	53	78	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.88E-6	55	80	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.7E-5	57	78	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.713	97	125	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	8.0E-7	97	124	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	9.7E-10	100	124	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.66E-6	100	124	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	4.6E-5	102	123	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.3E-6	145	172	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.356	145	173	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.5E-10	147	171	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.49E-6	148	172	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.3E-4	151	170	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.1E-6	294	321	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.253	294	322	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.9E-10	296	320	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.31E-5	298	322	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.9E-4	300	320	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	5.2E-5	339	366	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.474	339	367	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.1E-8	340	365	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	5.36E-6	340	367	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.3E-4	343	366	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: 467 aa Download sequence Send to blast
MERYGRAGEE ESRSDPSLEW TARESETGIE ASMWRLGLRG GGGGGESYPE RPDEPDCIYY 60 LRTGVCGYGS RCRFNHPRNR APVLGGLRTE AGEFPERLGQ PVCQHFLRTG TCKFGASCKY 120 HHPRGGGRGD SVTPTSLSYM GFPLRPGEKE CSYYMRTGQC KFGSTCRFHH PVPPGVQSPS 180 QQQQQQQSPA LYPSLQSQSV PSSQQFGVVV ARPQLLPGSY LQSPYGYSQM VLPPGMVPYS 240 GWNPYQASVS TIPSRGTQAS IGSSSVYGIT PLSPSAPAYQ SGPSSMKEQS FPQRPGQPEC 300 QYFMRTGDCK FGVSCKYHHP LEAASPKGVT LSNIGLPLRP GTAQCSHFAQ HGICKFGPAC 360 KFDHSISSSS LSYSPSASSL TDMPVAPYPL GSSSLGTLAP SSSSSSDQRT ELLSSSSIKP 420 KTTTSGGSET VATGVSSSSM TSGVSHSETA ETKNNDSASI ETKTSN*

Sequence ? help Back to Top

Protein Sequence Length: 467 aa Download sequence Send to blast

MERYGRAGEE ESRSDPSLEW TARESETGIE ASMWRLGLRG GGGGGESYPE RPDEPDCIYY  60
LRTGVCGYGS RCRFNHPRNR APVLGGLRTE AGEFPERLGQ PVCQHFLRTG TCKFGASCKY  120
HHPRGGGRGD SVTPTSLSYM GFPLRPGEKE CSYYMRTGQC KFGSTCRFHH PVPPGVQSPS  180
QQQQQQQSPA LYPSLQSQSV PSSQQFGVVV ARPQLLPGSY LQSPYGYSQM VLPPGMVPYS  240
GWNPYQASVS TIPSRGTQAS IGSSSVYGIT PLSPSAPAYQ SGPSSMKEQS FPQRPGQPEC  300
QYFMRTGDCK FGVSCKYHHP LEAASPKGVT LSNIGLPLRP GTAQCSHFAQ HGICKFGPAC  360
KFDHSISSSS LSYSPSASSL TDMPVAPYPL GSSSLGTLAP SSSSSSDQRT ELLSSSSIKP  420
KTTTSGGSET VATGVSSSSM TSGVSHSETA ETKNNDSASI ETKTSN*

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Thhalv10013460m

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_006400404.1	0.0	zinc finger CCCH domain-containing protein 58
Swissprot	Q6NPN3	0.0	C3H58_ARATH; Zinc finger CCCH domain-containing protein 58
TrEMBL	V4LHG2	0.0	V4LHG2_EUTSA; Uncharacterized protein
STRING	XP_006400404.1	0.0	(Eutrema salsugineum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1779	27	86

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G18550.1	0.0	C3H family protein

Link Out ? help Back to Top
Phytozome	Thhalv10013460m
Entrez Gene	18019038

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]