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

676739336

Organism

Sisymbrium irio

Taxonomic ID

3730

Taxonomic Lineage

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

Family

C3H

Protein Properties

Length: 510aa MW: 56540.4 Da PI: 7.0904

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
676739336	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	43.6	4.9e-14	111	133	4	26
---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHg 26 e C+f++rtG CkyG++CkF+H+ 676739336 111 EDCSFYMRTGSCKYGSSCKFNHP 133 89********************9 PP
2	zf-CCCH	26.3	1.3e-08	227	247	7	27
SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 7 rffartGtCkyGdrCkFaHgp 27 ++++rtG CkyG++C+F+H++ 676739336 227 QYYFRTGGCKYGETCRFSHSK 247 59*****************95 PP
3	zf-CCCH	37.3	4.7e-12	268	292	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++++C+f++r+G Ck+G+ CkF+H+ 676739336 268 GEKECPFYMRNGSCKFGGDCKFNHP 292 7899********************9 PP
4	zf-CCCH	18.1	4.7e-06	411	436	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 ++++C+++ +tG Ck+ +Ck++H++ 676739336 411 DQPECSYYVKTGDCKFKYKCKYHHPK 436 689*********************96 PP
5	zf-CCCH	31.9	2.3e-10	459	481	4	26
---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHg 26 C +++r+G+Ck+G+ C+F H+ 676739336 459 NMCTHYSRYGICKFGPACRFDHS 481 67********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF90229	1.7E-6	105	135	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	7.5E-7	107	134	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.46	107	135	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.2E-11	111	133	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	8.7E-6	113	132	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	10.427	221	248	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.77	225	247	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.3E-6	227	247	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.4E-4	228	248	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.8E-6	266	293	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.601	266	294	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	9.16E-6	268	293	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.1E-9	268	292	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.076	409	436	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.577	409	437	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.0078	455	482	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.971	455	483	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	9.42E-6	456	483	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.7E-4	460	481	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	6.1E-7	461	481	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: 510 aa Download sequence Send to blast
MSKPEETPDP NPTGPDPKPP SRSSSDNDPV ADRAQSDLNH HISEELSDNL RNVGLSEEAT 60 KEVSVPISVS GGDGETDSRD HKEEEEEEEG VQGGREREKR MIVYPVRPDA EDCSFYMRTG 120 SCKYGSSCKF NHPLRRKLQG ESKGKGKGKG KGRGCGESEA HGVQGSHFVE TSEHCMLIGT 180 YGHVIVLDCD YKSFHSRNNC VFAKQWTLKL SVYLLMSYQW PQFRGLQYYF RTGGCKYGET 240 CRFSHSKEHA SLASRPELNF LGLPIRPGEK ECPFYMRNGS CKFGGDCKFN HPDPTAVGGV 300 DSPLFHGNNG GSVGSFSPKD TPQASSTSWS SSRHINGTGT APFIPVMYSQ NRGVSPQTSE 360 WSGYQAPSVY LPEKSVLPPS TYSANNSLPE TSSFSQFQQQ TPVEEFPERP DQPECSYYVK 420 TGDCKFKYKC KYHHPKNRLP KQSPSSFNDK GLPLRPDQNM CTHYSRYGIC KFGPACRFDH 480 SIPPTFSSSS SQTVEAPQAG GNGNENDSWN

Sequence ? help Back to Top

Protein Sequence Length: 510 aa Download sequence Send to blast

MSKPEETPDP NPTGPDPKPP SRSSSDNDPV ADRAQSDLNH HISEELSDNL RNVGLSEEAT  60
KEVSVPISVS GGDGETDSRD HKEEEEEEEG VQGGREREKR MIVYPVRPDA EDCSFYMRTG  120
SCKYGSSCKF NHPLRRKLQG ESKGKGKGKG KGRGCGESEA HGVQGSHFVE TSEHCMLIGT  180
YGHVIVLDCD YKSFHSRNNC VFAKQWTLKL SVYLLMSYQW PQFRGLQYYF RTGGCKYGET  240
CRFSHSKEHA SLASRPELNF LGLPIRPGEK ECPFYMRNGS CKFGGDCKFN HPDPTAVGGV  300
DSPLFHGNNG GSVGSFSPKD TPQASSTSWS SSRHINGTGT APFIPVMYSQ NRGVSPQTSE  360
WSGYQAPSVY LPEKSVLPPS TYSANNSLPE TSSFSQFQQQ TPVEEFPERP DQPECSYYVK  420
TGDCKFKYKC KYHHPKNRLP KQSPSSFNDK GLPLRPDQNM CTHYSRYGIC KFGPACRFDH  480
SIPPTFSSSS SQTVEAPQAG GNGNENDSWN

Cis-element ? help Back to Top
Source	Link
PlantRegMap	676739336

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_023643530.1	0.0	zinc finger CCCH domain-containing protein 67 isoform X1
Swissprot	Q9STM4	1e-175	C3H43_ARATH; Zinc finger CCCH domain-containing protein 43
TrEMBL	A0A178UCC3	0.0	A0A178UCC3_ARATH; Uncharacterized protein
STRING	XP_006394295.1	0.0	(Eutrema salsugineum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4176	27	58

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G63260.1	1e-155	C3H family protein

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]