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

Thhalv10010405m

Common Name

EUTSA_v10010405mg

Organism

Eutrema salsugineum

Taxonomic ID

72664

Taxonomic Lineage

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

Family

C3H

Protein Properties

Length: 424aa MW: 46874.9 Da PI: 5.8754

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thhalv10010405m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	39.1	1.2e-12	118	140	4	26
---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHg 26 e C f++rtG Ck+G++CkF+H+ Thhalv10010405m 118 EDCAFYMRTGSCKFGSSCKFNHP 140 78********************9 PP
2	zf-CCCH	29.9	9.3e-10	169	188	6	25
-SGGGGTS--TTTTT-SS-S CS zf-CCCH 6 CrffartGtCkyGdrCkFaH 25 C++++rtG CkyG++C+F+H Thhalv10010405m 169 CKYYFRTGGCKYGETCRFNH 188 ******************** PP
3	zf-CCCH	38.8	1.6e-12	212	235	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 + +C++++r+G Ck+G+ CkF+H+ Thhalv10010405m 212 EIECPYYMRNGSCKFGADCKFNHP 235 568********************9 PP
4	zf-CCCH	20	1.2e-06	352	377	2	27
-S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHgp 27 ++++C+++++tG Ck+ +Ck++H++ Thhalv10010405m 352 DQPECSYYLKTGDCKFKFKCKYHHPK 377 689*********************96 PP
5	zf-CCCH	33.7	6.3e-11	401	422	5	26
--SGGGGTS--TTTTT-SS-SS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26 +C +++r+G+Ck+G+ C+F H+ Thhalv10010405m 401 ICTHYSRYGICKFGPACRFDHS 422 8********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	1.4E-5	114	141	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.49E-6	117	143	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.1E-10	118	140	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.089	119	142	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.3E-5	120	139	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	7.4E-4	163	190	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.676	163	191	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.57E-5	165	191	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	5.7E-5	169	189	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.9E-7	169	188	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.0E-6	209	236	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.544	209	237	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.2E-10	212	235	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.09E-5	213	237	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.6E-4	215	234	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.45	350	377	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.122	350	378	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	9.03E-5	354	380	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.83E-5	395	422	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.7E-4	396	423	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.239	396	423	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.6E-4	401	422	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.5E-8	401	422	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: 424 aa Download sequence Send to blast
MVNSERISGS VADGFEPEPA SRSSSSADRS PSDLNLLTKL IEAFDNVGFG EVAKDQSGTV 60 MSVSEGNGGV DSKAVDGNQE EEEGGRDADG DGDGESESES ENMVEKREVV YPVRPWAEDC 120 AFYMRTGSCK FGSSCKFNHP LPNPRKIQIA RDKVTEKEED ADNLRLMDCK YYFRTGGCKY 180 GETCRFNHTK PKSCLPSVPE LNFLGLPIRP GEIECPYYMR NGSCKFGADC KFNHPDPTTN 240 GGTDSPSFHG NNGGSIGSFS PKSTLQASSA PWSSQRHANG TTPFIPSMLS QSRGVPSQTP 300 EWNGYQASVY SSERNVFSPS NTYLMNNSSA ETSIFSQYQY QMPAEEFPER PDQPECSYYL 360 KTGDCKFKFK CKYHHPKNRL PKQPPYALND KGLPLRPDQI ICTHYSRYGI CKFGPACRFD 420 HSI*

Sequence ? help Back to Top

Protein Sequence Length: 424 aa Download sequence Send to blast

MVNSERISGS VADGFEPEPA SRSSSSADRS PSDLNLLTKL IEAFDNVGFG EVAKDQSGTV  60
MSVSEGNGGV DSKAVDGNQE EEEGGRDADG DGDGESESES ENMVEKREVV YPVRPWAEDC  120
AFYMRTGSCK FGSSCKFNHP LPNPRKIQIA RDKVTEKEED ADNLRLMDCK YYFRTGGCKY  180
GETCRFNHTK PKSCLPSVPE LNFLGLPIRP GEIECPYYMR NGSCKFGADC KFNHPDPTTN  240
GGTDSPSFHG NNGGSIGSFS PKSTLQASSA PWSSQRHANG TTPFIPSMLS QSRGVPSQTP  300
EWNGYQASVY SSERNVFSPS NTYLMNNSSA ETSIFSQYQY QMPAEEFPER PDQPECSYYL  360
KTGDCKFKFK CKYHHPKNRL PKQPPYALND KGLPLRPDQI ICTHYSRYGI CKFGPACRFD  420
HSI*

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Thhalv10010405m

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_006404259.1	0.0	zinc finger CCCH domain-containing protein 43
Swissprot	Q9STM4	0.0	C3H43_ARATH; Zinc finger CCCH domain-containing protein 43
TrEMBL	V4LT87	0.0	V4LT87_EUTSA; Uncharacterized protein
STRING	XP_006404259.1	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
AT3G48440.1	0.0	C3H family protein

Link Out ? help Back to Top
Phytozome	Thhalv10010405m
Entrez Gene	18020749

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]