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

Cagra.0807s0009.2.p

Organism

Capsella grandiflora

Taxonomic ID

264402

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: 373aa MW: 41377.8 Da PI: 6.4955

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cagra.0807s0009.2.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	42.3	1.2e-13	48	71	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 e C+f++rtG Ck+G++CkF+H+ Cagra.0807s0009.2.p 48 AEDCSFYMRTGSCKFGSSCKFNHP 71 689********************9 PP
2	zf-CCCH	32.2	1.8e-10	98	118	5	25
--SGGGGTS--TTTTT-SS-S CS zf-CCCH 5 lCrffartGtCkyGdrCkFaH 25 C++++rtG CkyG++C+F+H Cagra.0807s0009.2.p 98 DCKYYFRTGGCKYGESCRFNH 118 5******************** PP
3	zf-CCCH	40.3	5.4e-13	142	165	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 +++C++++r+G Ck+G+ CkF+H+ Cagra.0807s0009.2.p 142 EVECPYYMRNGSCKFGAECKFNHP 165 789********************9 PP
4	zf-CCCH	17.8	6.1e-06	272	297	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 ++++C+++ +tG Ck+ +Ck++H++ Cagra.0807s0009.2.p 272 DQPECSYYIKTGDCKFKFNCKYHHPK 297 689*********************96 PP
5	zf-CCCH	33.2	8.5e-11	319	342	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 + +C +++r+G+Ck+G+ C+F H+ Cagra.0807s0009.2.p 319 QNICTHYSRYGICKFGPACRFDHS 342 679********************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	15.432	45	73	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.4E-7	45	72	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.22E-6	45	73	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.9E-11	48	71	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.7E-5	51	70	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.629	93	121	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.5E-4	93	120	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.31E-5	96	121	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	5.2E-8	98	118	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.7E-6	99	120	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.887	139	167	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	8.9E-7	139	166	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.15E-5	142	166	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.0E-10	142	165	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.3E-4	145	164	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1	270	297	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.718	270	298	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	4.58E-5	274	300	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.4E-6	314	342	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.502	316	344	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.9E-4	316	343	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.8E-8	319	342	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.3E-4	321	343	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: 373 aa Download sequence Send to blast
GLDSNAVVTN QEQEEDGDGY GCVYGDGDGW SENESEENEA VYPVRPGAED CSFYMRTGSC 60 KFGSSCKFNH PLSRKIQIAR DNKVREKEED GDKLRLIDCK YYFRTGGCKY GESCRFNHTK 120 SKSCLASVPE LNFLGLPIRL GEVECPYYMR NGSCKFGAEC KFNHPDPTTI GGTDSPSFHS 180 NNGVSAGSFS PKSTFQASSA SWSSPRHANG STPFIPVMLS QTHGVPSQTP EWNGYQASVY 240 SSERGVFSSS NISMLSQYHH QMPAEEFPER PDQPECSYYI KTGDCKFKFN CKYHHPKNRL 300 PKLPPYALND KGLPLRPDQN ICTHYSRYGI CKFGPACRFD HSAQLPYPTG NSQTIVEPPQ 360 VGANGDEVDG WN*

Sequence ? help Back to Top

Protein Sequence Length: 373 aa Download sequence Send to blast

GLDSNAVVTN QEQEEDGDGY GCVYGDGDGW SENESEENEA VYPVRPGAED CSFYMRTGSC  60
KFGSSCKFNH PLSRKIQIAR DNKVREKEED GDKLRLIDCK YYFRTGGCKY GESCRFNHTK  120
SKSCLASVPE LNFLGLPIRL GEVECPYYMR NGSCKFGAEC KFNHPDPTTI GGTDSPSFHS  180
NNGVSAGSFS PKSTFQASSA SWSSPRHANG STPFIPVMLS QTHGVPSQTP EWNGYQASVY  240
SSERGVFSSS NISMLSQYHH QMPAEEFPER PDQPECSYYI KTGDCKFKFN CKYHHPKNRL  300
PKLPPYALND KGLPLRPDQN ICTHYSRYGI CKFGPACRFD HSAQLPYPTG NSQTIVEPPQ  360
VGANGDEVDG WN*

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Cagra.0807s0009.2.p

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	0.0	BT033139.1 Arabidopsis thaliana unknown protein (At3g48440) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006291144.1	0.0	zinc finger CCCH domain-containing protein 43 isoform X2
Swissprot	Q9STM4	0.0	C3H43_ARATH; Zinc finger CCCH domain-containing protein 43
TrEMBL	R0FNK5	0.0	R0FNK5_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	Cagra.0807s0009.2.p

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]