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

Sopim10g079120.0.1

Organism

Solanum pimpinellifolium

Taxonomic ID

4084

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon

Family

C3H

Protein Properties

Length: 704aa MW: 76656 Da PI: 6.8954

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sopim10g079120.0.1	genome	CSHL	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	21.6	3.9e-07	280	300	5	26
--SGGGGTS--TTTTT-SS-SS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26 +C+ f++ G C++Gd C +aHg Sopim10g079120.0.1 280 PCPEFRK-GACRRGDMCEYAHG 300 8****.***********9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.25.40.20	3.9E-21	11	162	IPR020683	Ankyrin repeat-containing domain
SuperFamily	SSF48403	7.62E-20	17	139	IPR020683	Ankyrin repeat-containing domain
Pfam	PF12796	6.6E-12	53	128	IPR020683	Ankyrin repeat-containing domain
SMART	SM00248	8.0E-4	59	89	IPR002110	Ankyrin repeat
CDD	cd00204	5.01E-18	59	137	No hit	No description
PROSITE profile	PS50297	19.306	59	135	IPR020683	Ankyrin repeat-containing domain
PRINTS	PR01415	1.3E-5	60	75	IPR002110	Ankyrin repeat
PROSITE profile	PS50088	13.17	94	129	IPR002110	Ankyrin repeat
SMART	SM00248	1.3E-4	94	126	IPR002110	Ankyrin repeat
PRINTS	PR01415	1.3E-5	113	127	IPR002110	Ankyrin repeat
SMART	SM00356	9.5E-6	275	301	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.981	280	302	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.2E-4	280	300	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	4.2E-4	308	338	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	54	310	333	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0005737	Cellular Component	cytoplasm
GO:0005515	Molecular Function	protein binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 704 aa Download sequence Send to blast
MNMNHLTVET EDTLASLLEI ASNNDIDAFK RWIEHDLSSI NEVGMWYGRQ KGTRQMVLEH 60 RTPLMVAAMY GSIDVLKLIL SLAGVDVNRS CGRDNSTALH CAASGGSLNA VEAVKLLLEA 120 GADPNVKDAY GYRPLDVLVT SLKDHTIKSC LENLLKTDGM GDCNLRVSMA SSNSNSPPLS 180 PSLGNISPSS ASDTTSSPRS AKSTDLPVPS PPEKKEYPID PSLPDIKNSI YSTDEFRMFS 240 FKIKPCSRAY SHDWTECPFV HPGENARRRD PRKYHYSCVP CPEFRKGACR RGDMCEYAHG 300 VFECWLHPAQ YRTRLCKDGT NCDRRVCFFA HMQEELRPLY MSTGSAVLSP RSNASAANAM 360 DFAAAMGLIP GSPSSVSVMS PSPFTPPMSP SANGVANMGW PPQNVPALHL PGSNLQSSRL 420 RSSLNARDIP AKDLTMLSDF DVQQQQLLNG LSCLSQSSTH ANSFNRSVRP KTLTPSNLED 480 LFSAEGSSPR FSDQALSQAV FSPTHKSAVF NQYLQQQKAM LSPINTSFSP RNVDNPILQG 540 SFGVPSSRSM SPRGMEPISP MSSRVSMLAQ GDKQHQFRSL SSRDLGSSAA SAIAGSPSDT 600 WSNWGIAPGK PDWAVNSEEF GRLRRSSSFE LANNGEEPDL SWVQSLVKES PQEAKNKSAS 660 RVSGLTDSGA DISEGSTSGS QIEQYDQLGA WMEQMKLDQL IAR*

Sequence ? help Back to Top

Protein Sequence Length: 704 aa Download sequence Send to blast

MNMNHLTVET EDTLASLLEI ASNNDIDAFK RWIEHDLSSI NEVGMWYGRQ KGTRQMVLEH  60
RTPLMVAAMY GSIDVLKLIL SLAGVDVNRS CGRDNSTALH CAASGGSLNA VEAVKLLLEA  120
GADPNVKDAY GYRPLDVLVT SLKDHTIKSC LENLLKTDGM GDCNLRVSMA SSNSNSPPLS  180
PSLGNISPSS ASDTTSSPRS AKSTDLPVPS PPEKKEYPID PSLPDIKNSI YSTDEFRMFS  240
FKIKPCSRAY SHDWTECPFV HPGENARRRD PRKYHYSCVP CPEFRKGACR RGDMCEYAHG  300
VFECWLHPAQ YRTRLCKDGT NCDRRVCFFA HMQEELRPLY MSTGSAVLSP RSNASAANAM  360
DFAAAMGLIP GSPSSVSVMS PSPFTPPMSP SANGVANMGW PPQNVPALHL PGSNLQSSRL  420
RSSLNARDIP AKDLTMLSDF DVQQQQLLNG LSCLSQSSTH ANSFNRSVRP KTLTPSNLED  480
LFSAEGSSPR FSDQALSQAV FSPTHKSAVF NQYLQQQKAM LSPINTSFSP RNVDNPILQG  540
SFGVPSSRSM SPRGMEPISP MSSRVSMLAQ GDKQHQFRSL SSRDLGSSAA SAIAGSPSDT  600
WSNWGIAPGK PDWAVNSEEF GRLRRSSSFE LANNGEEPDL SWVQSLVKES PQEAKNKSAS  660
RVSGLTDSGA DISEGSTSGS QIEQYDQLGA WMEQMKLDQL IAR*

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC215487	0.0	AC215487.4 Solanum lycopersicum cultivar Heinz 1706 chromosome 0 clone C00SLm0076E07, complete sequence.
GenBank	AC244298	0.0	AC244298.9 Solanum lycopersicum strain Heinz 1706 chromosome 10 clone hba-22l14 map 10, complete sequence.
GenBank	AC244588	0.0	AC244588.6 Solanum lycopersicum strain Heinz 1706 chromosome 10 clone hba-44j8 map 10, complete sequence.
GenBank	HG975522	0.0	HG975522.1 Solanum lycopersicum chromosome ch10, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004249196.1	0.0	zinc finger CCCH domain-containing protein 30
Refseq	XP_004249197.1	0.0	zinc finger CCCH domain-containing protein 30
Swissprot	P93755	0.0	C3H30_ARATH; Zinc finger CCCH domain-containing protein 30
TrEMBL	A0A0V0IT35	0.0	A0A0V0IT35_SOLCH; Putative zinc finger CCCH domain-containing protein 30-like
STRING	Solyc10g079120.1.1	0.0	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA883	24	88

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G41900.1	0.0	CCCH-type zinc finger protein with ARM repeat domain

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] He L, et al. Maize OXIDATIVE STRESS2 Homologs Enhance Cadmium Tolerance in Arabidopsis through Activation of a Putative SAM-Dependent Methyltransferase Gene. Plant Physiol., 2016. 171(3): p. 1675-85 [PMID:27208260]