PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

C3H

Protein Properties

Length: 305aa MW: 34136.6 Da PI: 5.6805

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.005G129300.3	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	38.3	2.2e-12	200	225	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 y +C+++ +tG+C yGd+CkF+H+ Gorai.005G129300.3 200 YQPDICKDYKETGYCGYGDSCKFMHD 225 67789********************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF90229	1.7E-9	198	230	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.1E-7	199	226	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.878	199	227	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.1E-10	200	225	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.5E-12	200	230	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:3.30.40.10	3.9E-9	270	303	IPR013083	Zinc finger, RING/FYVE/PHD-type
SuperFamily	SSF57850	2.42E-9	277	303	No hit	No description
CDD	cd00162	1.18E-5	278	304	No hit	No description
PROSITE pattern	PS00518	0	293	302	IPR017907	Zinc finger, RING-type, conserved site

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005515	Molecular Function	protein binding
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 305 aa Download sequence Send to blast
MADSSELQDP GKELRQSETE PQQSEQVCNF FRKPTKGKNI RKRTINEDED EDSRNGTSLL 60 HNQKKASKPD NKLYFSTGSS KSATATESST ESHKLVLQFE SSKEIQVQND SGATAILETE 120 TEFTKDARAI REKVLKRAEE ALKGKSTSSG GEKLYTGMHG YVDHKAGFRR EQTVASEKAG 180 GSHGPLRASA HIRVSARFDY QPDICKDYKE TGYCGYGDSC KFMHDRGDYK SGWQLEKEWE 240 EAEKARKRNL ALGEGDDDDE AGVVQSDDDD DDTLPFACFI CRQPFVDPVV TKCKHYFCEH 300 CALK*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5z56_M	5e-54	25	304	12	288	RING finger protein 113A
5z58_M	5e-54	25	304	12	288	RING finger protein 113A
6ff4_t	5e-54	25	304	12	288	RING finger protein 113A
6ff7_t	5e-54	25	304	12	288	RING finger protein 113A
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	HQ527634	1e-91	HQ527634.1 Gossypium herbaceum clone NBRI_E_EYT27PB03GMUBB simple sequence repeat marker, mRNA sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012478479.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 1 isoform X2
Swissprot	Q8GX84	1e-151	C3H1_ARATH; Zinc finger CCCH domain-containing protein 1
TrEMBL	A0A0D2PS82	0.0	A0A0D2PS82_GOSRA; Uncharacterized protein
STRING	Gorai.005G129300.1	0.0	(Gossypium raimondii)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G01350.1	1e-131	C3H family protein

Link Out ? help Back to Top
Phytozome	Gorai.005G129300.3
Entrez Gene	105794043

Publications ? help Back to Top
Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886]