PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria

Family

C3H

Protein Properties

Length: 925aa MW: 102444 Da PI: 9.5903

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Seita.6G073300.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	20.5	8.4e-07	207	226	5	25
--SGGGGTS--TTTTT-SS-S CS zf-CCCH 5 lCrffartGtCkyGdrCkFaH 25 +Cr+f + G C++G +C+F H Seita.6G073300.1.p 207 PCRDFVA-GRCRRGTNCRFLH 226 7****.*********** PP
2	zf-CCCH	27.5	5.3e-09	289	311	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 te C +fa+ G C +G++C+FaHg Seita.6G073300.1.p 289 TEQCYNFAK-GRCARGASCRFAHG 311 899****.***********9 PP
3	zf-CCCH	23.4	1e-07	350	369	5	25
--SGGGGTS--TTTTT-SS-S CS zf-CCCH 5 lCrffartGtCkyGdrCkFaH 25 +C+ffa+ G C++G++C++ H Seita.6G073300.1.p 350 PCKFFAE-GRCRRGENCPYLH 369 8****.*********** PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	0.0024	203	228	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.295	207	229	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	4.9E-5	207	228	IPR000571	Zinc finger, CCCH-type
Pfam	PF14608	0.093	207	226	No hit	No description
PROSITE profile	PS50103	15.497	286	313	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.002	286	312	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.8E-6	289	311	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.2E-6	289	312	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	16.896	345	372	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.6E-5	345	371	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.62E-7	346	370	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	5.1E-5	348	371	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.8E-5	349	369	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: 925 aa Download sequence Send to blast
MAGDSRKQRS KWDAKEGPHD IVEISEDESL PDKTGGHRKG DVHPKPDTSM HHGGAGHEKE 60 QADGFNKDTK ELQPKAPSER PQLLRAADER DEWSKAAANQ GMNRYADDRR RGDGWGTARN 120 RGYSSRAPSD PDAWRPRSRS PSPRGVWNRS RRNRSRSRSR SRSRNRSRSR SRSIGRGRGR 180 SRSPYFADRG PEWRVERGRT SGGPALPCRD FVAGRCRRGT NCRFLHEDGG QRPFEDHYPA 240 DPRERYGFQN KEFMDSREPN DYLRNRQSRD HYDDGPWERS EPRRDYRSTE QCYNFAKGRC 300 ARGASCRFAH GDSASHGGWR DEARESAHDR VGPDSSYGNR TEHRRVNKNP CKFFAEGRCR 360 RGENCPYLHE EAPQSQIGVS APDEPLNYSD GRSARGDYSN WGEQNNAMRA TSQILSRDDR 420 ENPISQNIGR NDSHYEYENR LSKDAGKSQY QIIPQEDFRS QVENKHEVAV SQQPQLLTPV 480 QITADNMNNE NISGMGGQNA PATEMSMQSG MHSANIIAEQ SLGQILQRHD AIPHIPGPST 540 LPVTTQLQKV ASSFHSNSHA QQSNFPVHQN RQEQFVVPQA SANNTPSTQG QPVAPNMGHG 600 QHGYGLEPQA LPNPSAHNGH NFSVASQVPQ NLPTTVLQAT VDIPRLTQDS GSQSIRNMQN 660 FQPPNMQNQP LQGLPLVPTS SSTDVAGVPV SHNAAKSEEV SRVTASLAQY FGNTAFGTGT 720 VGLQSSQPNV NSSLMATSSA APPAVQPNQW PWAQQQTGIV QPGLAVPSEQ QQQAPQTFQM 780 PIAVGISNGN SMHLPHGGAP SGPAAAASVV NETVPPESKK GENKDSDAEA HEDGDNKKSK 840 DSKTLKMFKV ALADFVKEAL KPTWKEGQMS REVHKTIVKK VVDKVTSTVE NTPPTKEKIE 900 IYMSYSKEKL NKLVQAYVGK YAKA*

Sequence ? help Back to Top

Protein Sequence Length: 925 aa Download sequence Send to blast

MAGDSRKQRS KWDAKEGPHD IVEISEDESL PDKTGGHRKG DVHPKPDTSM HHGGAGHEKE  60
QADGFNKDTK ELQPKAPSER PQLLRAADER DEWSKAAANQ GMNRYADDRR RGDGWGTARN  120
RGYSSRAPSD PDAWRPRSRS PSPRGVWNRS RRNRSRSRSR SRSRNRSRSR SRSIGRGRGR  180
SRSPYFADRG PEWRVERGRT SGGPALPCRD FVAGRCRRGT NCRFLHEDGG QRPFEDHYPA  240
DPRERYGFQN KEFMDSREPN DYLRNRQSRD HYDDGPWERS EPRRDYRSTE QCYNFAKGRC  300
ARGASCRFAH GDSASHGGWR DEARESAHDR VGPDSSYGNR TEHRRVNKNP CKFFAEGRCR  360
RGENCPYLHE EAPQSQIGVS APDEPLNYSD GRSARGDYSN WGEQNNAMRA TSQILSRDDR  420
ENPISQNIGR NDSHYEYENR LSKDAGKSQY QIIPQEDFRS QVENKHEVAV SQQPQLLTPV  480
QITADNMNNE NISGMGGQNA PATEMSMQSG MHSANIIAEQ SLGQILQRHD AIPHIPGPST  540
LPVTTQLQKV ASSFHSNSHA QQSNFPVHQN RQEQFVVPQA SANNTPSTQG QPVAPNMGHG  600
QHGYGLEPQA LPNPSAHNGH NFSVASQVPQ NLPTTVLQAT VDIPRLTQDS GSQSIRNMQN  660
FQPPNMQNQP LQGLPLVPTS SSTDVAGVPV SHNAAKSEEV SRVTASLAQY FGNTAFGTGT  720
VGLQSSQPNV NSSLMATSSA APPAVQPNQW PWAQQQTGIV QPGLAVPSEQ QQQAPQTFQM  780
PIAVGISNGN SMHLPHGGAP SGPAAAASVV NETVPPESKK GENKDSDAEA HEDGDNKKSK  840
DSKTLKMFKV ALADFVKEAL KPTWKEGQMS REVHKTIVKK VVDKVTSTVE NTPPTKEKIE  900
IYMSYSKEKL NKLVQAYVGK YAKA*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	161	171	RSRNRSRSRSR
2	163	171	RNRSRSRSR

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Seita.6G073300.1.p

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_004972916.1	0.0	zinc finger CCCH domain-containing protein 55
Swissprot	Q6YYC0	0.0	C3H55_ORYSJ; Zinc finger CCCH domain-containing protein 55
TrEMBL	K3YG53	0.0	K3YG53_SETIT; Uncharacterized protein
STRING	Si013221m	0.0	(Setaria italica)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP7766	34	43

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G33835.1	1e-08	C3H family protein

Link Out ? help Back to Top
Phytozome	Seita.6G073300.1.p
Entrez Gene	101781524

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]