PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

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: 1580aa MW: 172449 Da PI: 7.9089

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Solyc04g057990.2.1	genome	ITAG	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	17.2	9e-06	1431	1452	6	27
-SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 6 CrffartGtCkyGdrCkFaHgp 27 C+ f +tG C+ G++Ck +H++ Solyc04g057990.2.1 1431 CPVFEATGNCPKGSNCKLHHPK 1452 *****************99985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	13.422	1321	1350	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.013	1321	1349	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	5.9	1350	1374	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	6.7	1354	1375	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.0033	1376	1401	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.333	1376	1402	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.63	1403	1429	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	7.113	1403	1424	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.634	1425	1453	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.56	1430	1452	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0043484	Biological Process	regulation of RNA splicing
GO:0060149	Biological Process	negative regulation of posttranscriptional gene silencing
GO:0016607	Cellular Component	nuclear speck
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 1580 aa Download sequence Send to blast
MNQVLISLLS LRKQMKKWIF LHITTSTTVT ITTDKITVSA VGSSSNCTLD SYKDSRHLAD 60 KSTDSIDGRT SNGTLNNNKE SQLLPDEATV SVASRASNST SLLSSTVTND LTGTKESKES 120 AENKVLNQGS NHVEKFRLPF FIIRKKKVPK KKVINPINVK LPSDEVVSKL EKPFKLSAVS 180 KDESLEQSNS DGKKASPAKV LVSSSMDSEI YGVADYTSRS VQSVPSTMNF ETCMIEVQNE 240 PTSSDLDNTG HVGGHSEDEL RVSEDGPIKE SSESMACEER NGDAVLSSLD GREIHKDEVS 300 SSTEDTYISA DSGLGFSDGK KNAVAVIGSF GAGCVEPSSD SNVVPLLNNI ENGLRESFFN 360 ANDSCSNSDE TGRTAVDNDL QTADCLSNSD PRAGTFGGSF ESCVDGLTLS PEMRHTKGSI 420 NAGVSVGDDV RIIVDDDCLP KVTRKRKIMD DESVMPTTKM SKTEENVVSS LLGQGNNFSC 480 FREDRASEEE DGTVSGYGTD SLKGDHSYGG PSEVELSLQD CFKDDSESCS TKRAKKSEVS 540 SPAKVKSAPC VTTYEEPSSR PITMPMINDV SVTELESPNT LTNVDDSPLA RPSVNVLESS 600 SIAKGVCQAE PFEHFSDDQQ VVAHNSQLGA VGQETTTSVV SIETLKMADR VSDDQGSSVG 660 IDQKLAPESH ESCHYVLDRD DMPLLADNLS LFANKVSVKS MESVPDMSPL LSFPDLTNCS 720 VSEEPIDKSS VSSEIVIEKA LRVDENSRTA YDNISSSVKT SSDAFEFDRS SDHKVGGNPV 780 VNINTVALSS QNTVKSSKNV SSQGWKPNLG ANQQIPAGSR VLSVRPSSFI TPRNVPVPKK 840 PLTWHRTGNS FSSVVGRGSQ MNSLPPQSHL SKDTAKVGSY IRKGNSLVRN PSPVGSLPKG 900 YHASSSSTYR LNSSGVNDLR RKCENRAEIT GSPSCRGTPE VNAPSERPKT PTQSESFSCV 960 TLMSTSSPVV DHPGNGDIAT NSDPMEVTDN ILALKPSELP STSSAVLECQ IGLGGDSGSQ 1020 NTLDEGSSRK VIVYVKQRSN QLVAASDKTQ TSSDGYYKRR KNQLIRASGN NQMKQRVATT 1080 KNIVPFQRGL AKTSKLSKFS LVWKLGDTQS SRKYGGTVEY EKLWPFLFPW KRASYRRNFL 1140 SSSPSDNSSI IRRKLLLSKK RETIYTRSIH GLSLRRSKVL SVSGSSLKWS KSIEQRSKKA 1200 AEEAALAVAA VDKRRRGQYG SNADSMNGNN VSRERIFRIG CERYKMDSSG KTLHRISDEE 1260 PSVSVPEAKK SYVPKRLLIG NDEYVRVGNG NKLVRNPKRR VRILASEKVR WSLHTARIRL 1320 ARKKQYCQFF TRFGKCNKDS GKCPYIHDPS KIAVCSKFLN GSCSDTNCKL THEVIPERMQ 1380 DCSYFLQGIC SNENCPYRHV NVNPNASICE GFLRGYCADG NECQKKHTYV CPVFEATGNC 1440 PKGSNCKLHH PKNRRKGAKR KALSELKNGR GRYFGSPHIH ISECITAGSE KPSVKGNNDI 1500 FLEGKFVDFI SLDGSDEEEQ TIDQRSEEKP LCESGPAEMQ LDDLDELIKP VRLINRNRSV 1560 GSSPYIDSPS DMTTSYVSE*

Sequence ? help Back to Top

Protein Sequence Length: 1580 aa Download sequence Send to blast

MNQVLISLLS LRKQMKKWIF LHITTSTTVT ITTDKITVSA VGSSSNCTLD SYKDSRHLAD  60
KSTDSIDGRT SNGTLNNNKE SQLLPDEATV SVASRASNST SLLSSTVTND LTGTKESKES  120
AENKVLNQGS NHVEKFRLPF FIIRKKKVPK KKVINPINVK LPSDEVVSKL EKPFKLSAVS  180
KDESLEQSNS DGKKASPAKV LVSSSMDSEI YGVADYTSRS VQSVPSTMNF ETCMIEVQNE  240
PTSSDLDNTG HVGGHSEDEL RVSEDGPIKE SSESMACEER NGDAVLSSLD GREIHKDEVS  300
SSTEDTYISA DSGLGFSDGK KNAVAVIGSF GAGCVEPSSD SNVVPLLNNI ENGLRESFFN  360
ANDSCSNSDE TGRTAVDNDL QTADCLSNSD PRAGTFGGSF ESCVDGLTLS PEMRHTKGSI  420
NAGVSVGDDV RIIVDDDCLP KVTRKRKIMD DESVMPTTKM SKTEENVVSS LLGQGNNFSC  480
FREDRASEEE DGTVSGYGTD SLKGDHSYGG PSEVELSLQD CFKDDSESCS TKRAKKSEVS  540
SPAKVKSAPC VTTYEEPSSR PITMPMINDV SVTELESPNT LTNVDDSPLA RPSVNVLESS  600
SIAKGVCQAE PFEHFSDDQQ VVAHNSQLGA VGQETTTSVV SIETLKMADR VSDDQGSSVG  660
IDQKLAPESH ESCHYVLDRD DMPLLADNLS LFANKVSVKS MESVPDMSPL LSFPDLTNCS  720
VSEEPIDKSS VSSEIVIEKA LRVDENSRTA YDNISSSVKT SSDAFEFDRS SDHKVGGNPV  780
VNINTVALSS QNTVKSSKNV SSQGWKPNLG ANQQIPAGSR VLSVRPSSFI TPRNVPVPKK  840
PLTWHRTGNS FSSVVGRGSQ MNSLPPQSHL SKDTAKVGSY IRKGNSLVRN PSPVGSLPKG  900
YHASSSSTYR LNSSGVNDLR RKCENRAEIT GSPSCRGTPE VNAPSERPKT PTQSESFSCV  960
TLMSTSSPVV DHPGNGDIAT NSDPMEVTDN ILALKPSELP STSSAVLECQ IGLGGDSGSQ  1020
NTLDEGSSRK VIVYVKQRSN QLVAASDKTQ TSSDGYYKRR KNQLIRASGN NQMKQRVATT  1080
KNIVPFQRGL AKTSKLSKFS LVWKLGDTQS SRKYGGTVEY EKLWPFLFPW KRASYRRNFL  1140
SSSPSDNSSI IRRKLLLSKK RETIYTRSIH GLSLRRSKVL SVSGSSLKWS KSIEQRSKKA  1200
AEEAALAVAA VDKRRRGQYG SNADSMNGNN VSRERIFRIG CERYKMDSSG KTLHRISDEE  1260
PSVSVPEAKK SYVPKRLLIG NDEYVRVGNG NKLVRNPKRR VRILASEKVR WSLHTARIRL  1320
ARKKQYCQFF TRFGKCNKDS GKCPYIHDPS KIAVCSKFLN GSCSDTNCKL THEVIPERMQ  1380
DCSYFLQGIC SNENCPYRHV NVNPNASICE GFLRGYCADG NECQKKHTYV CPVFEATGNC  1440
PKGSNCKLHH PKNRRKGAKR KALSELKNGR GRYFGSPHIH ISECITAGSE KPSVKGNNDI  1500
FLEGKFVDFI SLDGSDEEEQ TIDQRSEEKP LCESGPAEMQ LDDLDELIKP VRLINRNRSV  1560
GSSPYIDSPS DMTTSYVSE*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6fbs_C	4e-18	1327	1452	41	168	Cleavage and polyadenylation specificity factor subunit 4
6fuw_C	4e-18	1327	1452	41	168	Cleavage and polyadenylation specificity factor subunit 4
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Les.8971	0.0	flower\| fruit\| root

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Solyc04g057990.2.1

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_010319713.1	0.0	uncharacterized protein At1g21580 isoform X3
TrEMBL	A0A3Q7GY41	0.0	A0A3Q7GY41_SOLLC; Uncharacterized protein
STRING	Solyc04g057990.2.1	0.0	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA7568	5	5
Representative plant	OGRP4573	5	5

Link Out ? help Back to Top
Phytozome	Solyc04g057990.2.1

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]