PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Niben101Scf08753g00012.1
Organism
Nicotiana benthamiana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana
Family C3H
Protein Properties Length: 333aa    MW: 37553.6 Da    PI: 9.0016
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Niben101Scf08753g00012.1genomeBTI-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH18.53.5e-06188209627
                               -SGGGGTS--TTTTT-SS-SSS CS
                   zf-CCCH   6 CrffartGtCkyGdrCkFaHgp 27 
                               Cr f +tG C+ G++Ck +H++
  Niben101Scf08753g00012.1 188 CRVFEATGNCPQGSKCKLHHPK 209
                               *****************99985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.42278107IPR000571Zinc finger, CCCH-type
SMARTSM003560.01778106IPR000571Zinc finger, CCCH-type
SMARTSM003566.9107131IPR000571Zinc finger, CCCH-type
PROSITE profilePS501036.925111132IPR000571Zinc finger, CCCH-type
SMARTSM003560.0033133158IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.333133159IPR000571Zinc finger, CCCH-type
PROSITE profilePS501037.047160181IPR000571Zinc finger, CCCH-type
SMARTSM003560.74160186IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.108182210IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.58E-5184207IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.2E-4185207IPR000571Zinc finger, CCCH-type
SMARTSM003560.71187209IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0043484Biological Processregulation of RNA splicing
GO:0060149Biological Processnegative regulation of posttranscriptional gene silencing
GO:0016607Cellular Componentnuclear speck
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 333 aa     Download sequence    Send to blast
MDPSGKTLQR ISGDEEPSVS VVAEAKKSYI PKRLLIGNDE YVRVGNGNKL VRNPKRRVRM  60
LASEKVRWSL HTARIRLARK KQYCQFFTRF GKCNKDNGKC PYIHDPSKIA VCTKFLNGSC  120
SDTNCKLTHE VLPERMQDCS YFLQGICSNE NCPYRHVNVN SNASICEGFL RGYCADGNEC  180
RKKHTYVCRV FEATGNCPQG SKCKLHHPKN KRKGVKRKAS SEMKNGRGRY FGSPHIDSSE  240
RVTAGSEKAS VRGNNNIFFN KGKFVDFISL DGSDEEELTI DQRSEEPPLC ESDSAEMQLD  300
DLDELIKPMK LINRNRSVDS SPFIDSPSDM AAS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6dnh_C1e-158420942169Cleavage and polyadenylation specificity factor subunit 4
6fbs_C4e-168420941168Cleavage and polyadenylation specificity factor subunit 4
6fuw_C4e-168420941168Cleavage and polyadenylation specificity factor subunit 4
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtPossesses RNA-binding and ribonuclease activities in vitro. {ECO:0000269|PubMed:18582464}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009783697.10.0PREDICTED: uncharacterized protein LOC104232248 isoform X1
RefseqXP_009783699.10.0PREDICTED: uncharacterized protein LOC104232248 isoform X3
RefseqXP_016511653.10.0PREDICTED: uncharacterized protein LOC107828795
SwissprotQ3ED781e-122C3H7_ARATH; Zinc finger CCCH domain-containing protein 7
TrEMBLA0A1S4DE860.0A0A1S4DE86_TOBAC; uncharacterized protein LOC107828795
TrEMBLA0A1U7WUV60.0A0A1U7WUV6_NICSY; uncharacterized protein LOC104232248 isoform X1
TrEMBLA0A1U7X9U40.0A0A1U7X9U4_NICSY; uncharacterized protein LOC104232248 isoform X3
STRINGXP_009783697.10.0(Nicotiana sylvestris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA756855
Publications ? help Back to Top
  1. Hématy K, et al.
    The Zinc-Finger Protein SOP1 Is Required for a Subset of the Nuclear Exosome Functions in Arabidopsis.
    PLoS Genet., 2016. 12(2): p. e1005817
    [PMID:26828932]