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

Sopen10g030850.1

Organism

Solanum pennellii

Taxonomic ID

28526

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: 461aa MW: 50918.1 Da PI: 8.3923

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sopen10g030850.1	genome	spenn	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	22.3	2.2e-07	43	63	5	26
--SGGGGTS--TTTTT-SS-SS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26 +C+ f++ G C++Gd C +aHg Sopen10g030850.1 43 PCPEFRK-GACQRGDMCEYAHG 63 8****.***********9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	2.0E-5	38	64	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	7.8E-4	41	65	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	5.6E-5	43	63	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.568	43	65	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	54	73	96	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: 461 aa Download sequence Send to blast
MFSFKIRPCS RAYSHDWTEC PFLHPGENAR RRDPRKYHYS CVPCPEFRKG ACQRGDMCEY 60 AHGVFECWLH PAQYRTRLCK DGIDCNRRVC FFAHKQDDLR PLYVSTGSAV PSPCGNSAAV 120 NAMDFAAAMG LIPGSPSSVS VMSPSPFTPP VSPSANGISS MGWAQRNAPP LHLPGSFVHS 180 SRLRSSLSAR GIPAADLSTC PDFDVQRQQF LNEFSCLSQR NSMSSDSLNH SARPMTFTRA 240 NIEDYFPAES SSPRFSDRTV AQSVFSPTHK SAVCSPFQQQ QQNLLSPINT NFSPRNIDNP 300 LLQASFGVPS SGKMSPRAME PISPRNSRVS ILAQRDRQQQ FRSLSSRDLG SNVSAIVGSP 360 TDTWLKWGTD VGKPDWAVNT EELGRLRQSS SFKLANNGKE PDLSWVQSLV KESPPEMMKD 420 KCVRHVSEPE LTGAGADLGE GSTSHSQIDQ LSAWMETKNT N

Sequence ? help Back to Top

Protein Sequence Length: 461 aa Download sequence Send to blast

MFSFKIRPCS RAYSHDWTEC PFLHPGENAR RRDPRKYHYS CVPCPEFRKG ACQRGDMCEY  60
AHGVFECWLH PAQYRTRLCK DGIDCNRRVC FFAHKQDDLR PLYVSTGSAV PSPCGNSAAV  120
NAMDFAAAMG LIPGSPSSVS VMSPSPFTPP VSPSANGISS MGWAQRNAPP LHLPGSFVHS  180
SRLRSSLSAR GIPAADLSTC PDFDVQRQQF LNEFSCLSQR NSMSSDSLNH SARPMTFTRA  240
NIEDYFPAES SSPRFSDRTV AQSVFSPTHK SAVCSPFQQQ QQNLLSPINT NFSPRNIDNP  300
LLQASFGVPS SGKMSPRAME PISPRNSRVS ILAQRDRQQQ FRSLSSRDLG SNVSAIVGSP  360
TDTWLKWGTD VGKPDWAVNT EELGRLRQSS SFKLANNGKE PDLSWVQSLV KESPPEMMKD  420
KCVRHVSEPE LTGAGADLGE GSTSHSQIDQ LSAWMETKNT N

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	HG975449	0.0	HG975449.1 Solanum pennellii chromosome ch10, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004249271.1	0.0	zinc finger CCCH domain-containing protein 24
Swissprot	Q10EL1	1e-170	C3H24_ORYSJ; Zinc finger CCCH domain-containing protein 24
TrEMBL	A0A3Q7IKM2	0.0	A0A3Q7IKM2_SOLLC; Uncharacterized protein
STRING	Solyc10g080260.1.1	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	1e-140	CCCH-type zinc finger protein with ARM repeat domain

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764]