PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Carubv10017333m

Common Name

CARUB_v10017261mg

Organism

Capsella rubella

Taxonomic ID

81985

Taxonomic Lineage

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

Family

C3H

Protein Properties

Length: 419aa MW: 46115.6 Da PI: 5.5828

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10017333m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	42.1	1.4e-13	117	140	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 e C+f++rtG Ck+G++CkF+H+ Carubv10017333m 117 AEDCSFYMRTGSCKFGSSCKFNHP 140 689********************9 PP
2	zf-CCCH	25.1	3e-08	146	164	7	25
SGGGGTS--TTTTT-SS-S CS zf-CCCH 7 rffartGtCkyGdrCkFaH 25 ++++rtG CkyG++C+F+H Carubv10017333m 146 QYYFRTGGCKYGESCRFNH 164 59***************** PP
3	zf-CCCH	40.1	6.2e-13	188	211	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 +++C++++r+G Ck+G+ CkF+H+ Carubv10017333m 188 EVECPYYMRNGSCKFGAECKFNHP 211 789********************9 PP
4	zf-CCCH	17.6	7.1e-06	318	343	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 ++++C+++ +tG Ck+ +Ck++H++ Carubv10017333m 318 DQPECSYYIKTGDCKFKFNCKYHHPK 343 689*********************96 PP
5	zf-CCCH	33	9.9e-11	365	388	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 + +C +++r+G+Ck+G+ C+F H+ Carubv10017333m 365 QNICTHYSRYGICKFGPACRFDHS 388 679********************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF90229	3.53E-6	114	142	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.432	114	142	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.4E-7	114	141	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	5.6E-11	117	140	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.0E-5	120	139	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.29	142	166	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	8.4E-6	146	164	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.3E-4	147	166	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	9.46	148	167	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.887	185	213	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	8.9E-7	185	212	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.31E-5	188	212	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.2E-10	188	211	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.5E-4	191	210	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.718	316	344	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1	316	343	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	5.36E-5	320	346	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	4.06E-6	360	388	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.502	362	390	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.9E-4	362	389	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	5.6E-8	365	388	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.5E-4	367	389	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: 419 aa Download sequence Send to blast
MVNSEEMEDG FDPKPVSRPS SGDSSAGRSL SDLNHAAEED LSDRFKNVGL KEVRKEQSET 60 MMSVSEGNGG LDSNAVVTNQ EQEEDGDGYG CVYGDGDGWS ENESEENEAV YPVRPGAEDC 120 SFYMRTGSCK FGSSCKFNHP LSRKIQYYFR TGGCKYGESC RFNHTKSKSC LASVPELNFL 180 GLPIRLGEVE CPYYMRNGSC KFGAECKFNH PDPTTIGGTD SPSFHSNNGV SAGSFSPKST 240 FQASSASWSS PRHANGSTPF IPVMLSQTHG VPSQTPEWNG YQASVYSSER GVFSSSNISM 300 LSQYHHQMPA EEFPERPDQP ECSYYIKTGD CKFKFNCKYH HPKNRLPKLP PYALNDKGLP 360 LRPDQNICTH YSRYGICKFG PACRFDHSAQ LPYPTGNSQT IVEPSQVGAN GDETDGWN*

Sequence ? help Back to Top

Protein Sequence Length: 419 aa Download sequence Send to blast

MVNSEEMEDG FDPKPVSRPS SGDSSAGRSL SDLNHAAEED LSDRFKNVGL KEVRKEQSET  60
MMSVSEGNGG LDSNAVVTNQ EQEEDGDGYG CVYGDGDGWS ENESEENEAV YPVRPGAEDC  120
SFYMRTGSCK FGSSCKFNHP LSRKIQYYFR TGGCKYGESC RFNHTKSKSC LASVPELNFL  180
GLPIRLGEVE CPYYMRNGSC KFGAECKFNH PDPTTIGGTD SPSFHSNNGV SAGSFSPKST  240
FQASSASWSS PRHANGSTPF IPVMLSQTHG VPSQTPEWNG YQASVYSSER GVFSSSNISM  300
LSQYHHQMPA EEFPERPDQP ECSYYIKTGD CKFKFNCKYH HPKNRLPKLP PYALNDKGLP  360
LRPDQNICTH YSRYGICKFG PACRFDHSAQ LPYPTGNSQT IVEPSQVGAN GDETDGWN*

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10017333m

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	BT033139	1e-157	BT033139.1 Arabidopsis thaliana unknown protein (At3g48440) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_023638334.1	0.0	zinc finger CCCH domain-containing protein 43 isoform X3
Swissprot	Q9STM4	0.0	C3H43_ARATH; Zinc finger CCCH domain-containing protein 43
TrEMBL	R0FPN0	0.0	R0FPN0_9BRAS; Uncharacterized protein
STRING	XP_006291144.1	0.0	(Capsella rubella)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G48440.1	0.0	C3H family protein

Link Out ? help Back to Top
Phytozome	Carubv10017333m
Entrez Gene	17885903

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]