PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Cucumis

Family

C3H

Protein Properties

Length: 236aa MW: 25040.3 Da PI: 9.158

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cucsa.142970.2	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	17.6	6.7e-06	28	53	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 kt+lC+ f C++Gd+C +aHg+ Cucsa.142970.2 28 KTRLCNKFNSAEGCRFGDKCYYAHGE 53 8***********************96 PP
2	zf-CCCH	26.8	8.9e-09	202	227	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 +kt+lC +f + G C + +rC+FaHg+ Cucsa.142970.2 202 FKTKLCANFTK-GACTFRERCHFAHGE 227 69*******.***********96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1000.10	1.6E-12	24	57	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	9.55E-8	25	57	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.062	26	53	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.99	26	54	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF54791	2.63E-14	90	171	IPR004088	K Homology domain, type 1
SMART	SM00322	4.9E-11	99	169	IPR004087	K Homology domain
Gene3D	G3DSA:3.30.1370.10	3.3E-14	99	170	IPR004088	K Homology domain, type 1
PROSITE profile	PS50084	13.355	100	164	IPR004088	K Homology domain, type 1
CDD	cd00105	3.61E-12	102	164	No hit	No description
Pfam	PF00013	2.2E-9	102	166	IPR004088	K Homology domain, type 1
Gene3D	G3DSA:4.10.1000.10	9.0E-15	200	233	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.68	201	228	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.3E-5	201	227	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	4.19E-8	201	231	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	5.2E-5	202	227	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003723	Molecular Function	RNA binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 236 aa Download sequence Send to blast
MISPALPPGI RNPAPPQSFP DGVPPAVKTR LCNKFNSAEG CRFGDKCYYA HGEWELGRPN 60 PPQDHGGMGP GPMQQPRMGG GWNAPPPPPN HGPAASFGAS ATAKISVDAS LAGPIIGKNG 120 VNSKNICRMT GARLSIKEHE SDPNLKNIEL EGTFDQINLA SSMVRELIAN VGAASANNAM 180 KQHQQHQHHS GMQQSSGSAN NFKTKLCANF TKGACTFRER CHFAHGESEL RKPGM*

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	LN681806	0.0	LN681806.1 Cucumis melo genomic scaffold, anchoredscaffold00025.
GenBank	LN713256	0.0	LN713256.1 Cucumis melo genomic chromosome, chr_2.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004149023.1	1e-174	PREDICTED: zinc finger CCCH domain-containing protein 14-like
Swissprot	Q69XQ3	7e-72	C3H44_ORYSJ; Zinc finger CCCH domain-containing protein 44
TrEMBL	A0A0A0M2L9	1e-173	A0A0A0M2L9_CUCSA; Uncharacterized protein
STRING	XP_004149023.1	1e-174	(Cucumis sativus)
STRING	XP_004161573.1	1e-174	(Cucumis sativus)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G06770.1	6e-51	C3H family protein

Link Out ? help Back to Top
Phytozome	Cucsa.142970.2
Entrez Gene	101217148

Publications ? help Back to Top
Ren Y, et al. An integrated genetic and cytogenetic map of the cucumber genome. PLoS ONE, 2009. 4(6): p. e5795 [PMID:19495411] Guo S, et al. Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types. BMC Genomics, 2010. 11: p. 384 [PMID:20565788] Li Z, et al. RNA-Seq improves annotation of protein-coding genes in the cucumber genome. BMC Genomics, 2011. 12: p. 540 [PMID:22047402]