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

Tp5g13590

Organism

Thellungiella parvula

Taxonomic ID

98039

Taxonomic Lineage

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

Family

C3H

Protein Properties

Length: 458aa MW: 50781.8 Da PI: 6.0652

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Tp5g13590	genome	thellungiella	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	42.9	8.3e-14	122	145	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 e C+f++rtGtCk+G++CkF+H+ Tp5g13590 122 AEDCSFYMRTGTCKFGSTCKFNHP 145 689********************9 PP
2	zf-CCCH	29.8	1e-09	175	194	6	25
-SGGGGTS--TTTTT-SS-S CS zf-CCCH 6 CrffartGtCkyGdrCkFaH 25 C++++rtG CkyG++C+F+H Tp5g13590 175 CKYYFRTGGCKYGETCRFNH 194 ******************** PP
3	zf-CCCH	38	2.7e-12	218	241	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 + +C++++r+G Ck+G+ CkF H+ Tp5g13590 218 EIECPYYMRNGSCKFGADCKFDHP 241 568********************9 PP
4	zf-CCCH	20	1.2e-06	358	383	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 ++++C+++++tG Ck+ +Ck++H++ Tp5g13590 358 DQPECSYYLKTGDCKFKFSCKYHHPK 383 689*********************96 PP
5	zf-CCCH	33.7	6.2e-11	405	428	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 + +C +++r+G+Ck+G+ C+F H+ Tp5g13590 405 QNICTHYSRYGICKFGPACRFDHS 428 679********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	1.3E-7	119	146	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.629	119	147	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.83E-6	121	148	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.2E-11	122	145	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.8E-5	125	144	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	7.4E-4	169	196	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.676	169	197	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	5.1E-6	171	197	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	6.3E-5	175	195	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.2E-7	175	194	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.525	215	243	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.1E-6	215	242	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	7.3E-10	218	241	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.35E-5	219	242	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.4E-4	221	240	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.41	356	383	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.056	356	384	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.01E-6	400	428	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.8E-4	402	429	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.765	402	430	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.4E-8	405	428	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.5E-4	407	429	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: 458 aa Download sequence Send to blast
MINSEEGVSI SISDGFEPKR VSRSSSCDSF ADRSPSDLNH AADELSDHLK NVGLDEVAKA 60 KSEKMMSVFE SNGAVDSKAV DGNQEKEEEE GRDGDGDDGG SESENENRFE KREASYPVRP 120 GAEDCSFYMR TGTCKFGSTC KFNHPLPNPR KNHIARDNKV REKEEDADNL RLMDCKYYFR 180 TGGCKYGETC RFNHTKPKSG LPAVQELNFL GLPIRPGEIE CPYYMRNGSC KFGADCKFDH 240 PDPTTIGGTD SPSFHGNNGG SIGSYSPKTT FQASSTSWSS PRHANGATPF VPSVLSQSRG 300 VPSQTPEWNG YQASVYSSER SVFSPSTTYL VNNSSTEPSI FSQYQYQMPA EEFPERPDQP 360 ECSYYLKTGD CKFKFSCKYH HPKNRLPKQP SYALNDKGLP LRPDQNICTH YSRYGICKFG 420 PACRFDHSIQ LPYPTGSSHA VVEPPQVGAN GNESDGWN

Sequence ? help Back to Top

Protein Sequence Length: 458 aa Download sequence Send to blast

MINSEEGVSI SISDGFEPKR VSRSSSCDSF ADRSPSDLNH AADELSDHLK NVGLDEVAKA  60
KSEKMMSVFE SNGAVDSKAV DGNQEKEEEE GRDGDGDDGG SESENENRFE KREASYPVRP  120
GAEDCSFYMR TGTCKFGSTC KFNHPLPNPR KNHIARDNKV REKEEDADNL RLMDCKYYFR  180
TGGCKYGETC RFNHTKPKSG LPAVQELNFL GLPIRPGEIE CPYYMRNGSC KFGADCKFDH  240
PDPTTIGGTD SPSFHGNNGG SIGSYSPKTT FQASSTSWSS PRHANGATPF VPSVLSQSRG  300
VPSQTPEWNG YQASVYSSER SVFSPSTTYL VNNSSTEPSI FSQYQYQMPA EEFPERPDQP  360
ECSYYLKTGD CKFKFSCKYH HPKNRLPKQP SYALNDKGLP LRPDQNICTH YSRYGICKFG  420
PACRFDHSIQ LPYPTGSSHA VVEPPQVGAN GNESDGWN

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Tp5g13590

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	NP_190414.1	0.0	Zinc finger C-x8-C-x5-C-x3-H type family protein
Swissprot	Q9STM4	0.0	C3H43_ARATH; Zinc finger CCCH domain-containing protein 43
TrEMBL	D7LRW7	0.0	D7LRW7_ARALL; Zinc finger (CCCH-type) family protein
STRING	Bostr.18473s0106.1.p	0.0	(Boechera stricta)

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
AT3G48440.1	0.0	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]