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

Solyc04g064770.1.1

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: 773aa MW: 86701.8 Da PI: 7.3757

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Solyc04g064770.1.1	genome	ITAG	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	18.6	3.3e-06	181	201	5	26
--SGGGGTS--TTTTT-SS-SS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26 Cr+f + G C+ G++C+F+H+ Solyc04g064770.1.1 181 TCRNFVK-GDCRWGASCRFSHD 201 6****.***********6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	2.0E-5	92	117	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.925	92	118	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	5.7E-4	95	115	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.032	176	202	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.047	176	203	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.5E-4	182	201	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.1	227	252	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	10.934	227	253	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: 773 aa Download sequence Send to blast
MSPAFERQSN SHSPDNGRAQ SRRYVGRARG RSRGRGERRS RSRSRGRDKF RTRSRSRSRD 60 KGSMRVQNRS RSPHNSKRDP YASADRRTGL HMYSKVCRNF AVGNCRRGSQ CWFFHPDAAI 120 HRDGGNLEDN LSERLGSRPE RGHISRYNDS EGLGYQSRDK LPYLHNLEDE LHRNQSRGRI 180 TCRNFVKGDC RWGASCRFSH DSPSGDNYEK GTQSESFNYV QGNQATRTGK LLCEYFAAGK 240 CYKDNCKFSH DATSRNHEIR PSNDNSGHRF DGTNIWLDGP KWDNETRPSE LVKASGWDES 300 VVRTDTSIIV LTDGTNEKPD HHFENKNKAW EIEPQFINSD TERGVSPHRG SASHLNALNI 360 TESSVTQSFA NAQGLHLISQ ASDLNLESAS THVLGHSSNQ GASEIVLSTT TTQPYGSAES 420 FVQPHGLTKE NIARTLGSNV VNEFMNDRDG VHHVHLPGQS FSGTGFGMSS EHSAVLNETH 480 QEENVFLPVP STGHNKIEAL GTPEMLDSKV PQYLTVSGEQ VHQMETSPAS MTKKVEEGQR 540 ETQLQSVLNP CDSSGMLPSN PISALVHALY GQIIPEMRVP DNYHPPDGLE LNTSGNIKLP 600 PDNSFYLYGD SNKVSMDQMN QTSTVDPELG NNDQIDEVKK QKNELVDVDE KDKLALEESK 660 NVEENDHPGA MNLHGKVEEG SGNNNEKVMR LFKNALIEFV KEILKPIWKE GKMSREVHKT 720 IVKKVVDKVI GSIQGEQVAK TQEDIEEYLS RSKPKITKLV QAYVEWFMKN EV*

Sequence ? help Back to Top

Protein Sequence Length: 773 aa Download sequence Send to blast

MSPAFERQSN SHSPDNGRAQ SRRYVGRARG RSRGRGERRS RSRSRGRDKF RTRSRSRSRD  60
KGSMRVQNRS RSPHNSKRDP YASADRRTGL HMYSKVCRNF AVGNCRRGSQ CWFFHPDAAI  120
HRDGGNLEDN LSERLGSRPE RGHISRYNDS EGLGYQSRDK LPYLHNLEDE LHRNQSRGRI  180
TCRNFVKGDC RWGASCRFSH DSPSGDNYEK GTQSESFNYV QGNQATRTGK LLCEYFAAGK  240
CYKDNCKFSH DATSRNHEIR PSNDNSGHRF DGTNIWLDGP KWDNETRPSE LVKASGWDES  300
VVRTDTSIIV LTDGTNEKPD HHFENKNKAW EIEPQFINSD TERGVSPHRG SASHLNALNI  360
TESSVTQSFA NAQGLHLISQ ASDLNLESAS THVLGHSSNQ GASEIVLSTT TTQPYGSAES  420
FVQPHGLTKE NIARTLGSNV VNEFMNDRDG VHHVHLPGQS FSGTGFGMSS EHSAVLNETH  480
QEENVFLPVP STGHNKIEAL GTPEMLDSKV PQYLTVSGEQ VHQMETSPAS MTKKVEEGQR  540
ETQLQSVLNP CDSSGMLPSN PISALVHALY GQIIPEMRVP DNYHPPDGLE LNTSGNIKLP  600
PDNSFYLYGD SNKVSMDQMN QTSTVDPELG NNDQIDEVKK QKNELVDVDE KDKLALEESK  660
NVEENDHPGA MNLHGKVEEG SGNNNEKVMR LFKNALIEFV KEILKPIWKE GKMSREVHKT  720
IVKKVVDKVI GSIQGEQVAK TQEDIEEYLS RSKPKITKLV QAYVEWFMKN EV*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	50	58	RTRSRSRSR

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Les.6252	0.0	cell culture\| floral bud\| flower\| fruit\| leaf

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Solyc04g064770.1.1

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	CU012067	0.0	S.lycopersicum DNA sequence from clone LE_HBa-132O11 on chromosome 4, complete sequence

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004237735.1	0.0	zinc finger CCCH domain-containing protein 55
TrEMBL	A0A3Q7G6P5	0.0	A0A3Q7G6P5_SOLLC; Uncharacterized protein
STRING	Solyc04g064770.1.1	0.0	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA5255	20	29
Representative plant	OGRP10278	6	9

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G33835.1	2e-14	C3H family protein

Link Out ? help Back to Top
Phytozome	Solyc04g064770.1.1

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]