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

Solyc01g067550.2.1

Common Name

LOC101268508

Organism

Solanum lycopersicum

Taxonomic ID

4081

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: 497aa MW: 51797.1 Da PI: 8.0405

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Solyc01g067550.2.1	genome	ITAG	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	36.8	6.6e-12	52	76	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 ++ C +++rtG+C yG rC+F+H++ Solyc01g067550.2.1 52 EPDCIYYLRTGFCGYGVRCRFNHPR 76 799********************96 PP
2	zf-CCCH	37	5.6e-12	98	122	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 ++ C++++rtG Ck+G++Ck++H++ Solyc01g067550.2.1 98 QPVCQYYMRTGMCKFGASCKYHHPR 122 689********************96 PP
3	zf-CCCH	35.9	1.3e-11	143	167	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++++C++f +tG+Ck+G +CkF+H+ Solyc01g067550.2.1 143 GEKECSYFVKTGQCKFGVTCKFNHP 167 7899********************9 PP
4	zf-CCCH	35.5	1.6e-11	321	344	4	27
---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 4 elCrffartGtCkyGdrCkFaHgp 27 +C++++++G CkyG++C+++H+p Solyc01g067550.2.1 321 QECQYYMKYGDCKYGSSCRYHHPP 344 58********************97 PP
5	zf-CCCH	34.8	2.8e-11	366	390	3	27
S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHgp 27 + C++fa++G Ck+G++CkF H++ Solyc01g067550.2.1 366 APVCSHFAQNGVCKFGPSCKFDHPM 390 589********************95 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	1.8E-5	49	76	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.033	49	77	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.6E-9	52	76	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	4.84E-6	53	78	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.5E-5	55	76	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	5.9E-7	95	122	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.554	95	123	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.49E-6	98	122	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.1E-8	98	122	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	5.3E-5	100	122	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.436	141	169	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	7.7E-6	141	168	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.31E-5	143	169	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.0E-9	143	167	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	4.4E-4	147	166	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.6E-5	317	344	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.638	317	345	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	8.5E-6	320	344	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	8.0E-9	321	344	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	6.8E-4	323	344	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.27E-6	362	389	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.4E-7	363	390	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.784	363	391	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.2E-8	366	390	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	4.4E-5	368	388	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: 497 aa Download sequence Send to blast
MERYSGTQAM EGEPVDPVSE WAVPGGETGL EEPMWQLSLG TGPEPYPERP NEPDCIYYLR 60 TGFCGYGVRC RFNHPRDRTS VLGAMRATGG EYPERVGQPV CQYYMRTGMC KFGASCKYHH 120 PRQGGVSPAP VTVNVYGYPL RPGEKECSYF VKTGQCKFGV TCKFNHPLPA GAQVPAPAAG 180 PGSGPGPLTA PAAVPAPHIY PPAVQSPSVQ SAQQYGVVSG NWPVARPTLL PGSYIPGTYG 240 SMLLPPGMVP LPGWTPYPAP VNPVPSPSTQ LAAAAGPMYG LSQLSPSAPA YTGPYLSVPS 300 SAGPSSSSQK EHAFPERPGL QECQYYMKYG DCKYGSSCRY HHPPEWSGPK TSFILSAMGL 360 PLRPGAPVCS HFAQNGVCKF GPSCKFDHPM GLTYSSSSSS LADMAVAPYP VGSAVGTLAP 420 SSSSSDLRPE VNAGSGRDGF STQVSSMNTS SGSVGSMFSK GGPASHSGVQ QSVQSSNPSG 480 GSSSSAGHGS EARTSN*

Sequence ? help Back to Top

Protein Sequence Length: 497 aa Download sequence Send to blast

MERYSGTQAM EGEPVDPVSE WAVPGGETGL EEPMWQLSLG TGPEPYPERP NEPDCIYYLR  60
TGFCGYGVRC RFNHPRDRTS VLGAMRATGG EYPERVGQPV CQYYMRTGMC KFGASCKYHH  120
PRQGGVSPAP VTVNVYGYPL RPGEKECSYF VKTGQCKFGV TCKFNHPLPA GAQVPAPAAG  180
PGSGPGPLTA PAAVPAPHIY PPAVQSPSVQ SAQQYGVVSG NWPVARPTLL PGSYIPGTYG  240
SMLLPPGMVP LPGWTPYPAP VNPVPSPSTQ LAAAAGPMYG LSQLSPSAPA YTGPYLSVPS  300
SAGPSSSSQK EHAFPERPGL QECQYYMKYG DCKYGSSCRY HHPPEWSGPK TSFILSAMGL  360
PLRPGAPVCS HFAQNGVCKF GPSCKFDHPM GLTYSSSSSS LADMAVAPYP VGSAVGTLAP  420
SSSSSDLRPE VNAGSGRDGF STQVSSMNTS SGSVGSMFSK GGPASHSGVQ QSVQSSNPSG  480
GSSSSAGHGS EARTSN*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Les.14116	0.0	cell culture\| flower\| fruit\| leaf

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Solyc01g067550.2.1

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	AC243712	0.0	Solanum lycopersicum strain Heinz 1706 chromosome 1 clone slm-44j2 map 1, complete sequence

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004229205.1	0.0	zinc finger CCCH domain-containing protein 34
Swissprot	Q6NPN3	1e-154	C3H58_ARATH; Zinc finger CCCH domain-containing protein 58
TrEMBL	A0A3Q7EGL4	0.0	A0A3Q7EGL4_SOLLC; Uncharacterized protein
STRING	Solyc01g067550.2.1	0.0	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA2412	24	59
Representative plant	OGRP2865	11	31

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G18550.1	1e-122	C3H family protein

Link Out ? help Back to Top
Phytozome	Solyc01g067550.2.1
Entrez Gene	101268508

Publications ? help Back to Top
Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments. Theor. Appl. Genet., 2005. 112(1): p. 72-84 [PMID:16208505] 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]