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 evm_27.model.AmTr_v1.0_scaffold00044.11
Common NameAMTR_s00044p00035820
Organism
Amborella trichopoda
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella
Family C2H2
Protein Properties Length: 650aa    MW: 69415.8 Da    PI: 7.3173
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00044.11genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H215.74.3e-056688123
                                             EEETTTTEEESSHHHHHHHHHHT CS
                                  zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                                             ++C+ C k F r  nL+ H r H
  evm_27.model.AmTr_v1.0_scaffold00044.11 66 FVCEVCEKGFQREQNLQLHRRGH 88
                                             89*******************88 PP
2zf-C2H212.50.00045142164123
                                              EEETTTTEEESSHHHHHHHHHHT CS
                                  zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                                              +kC++C+k +   s+ k H +t+
  evm_27.model.AmTr_v1.0_scaffold00044.11 142 FKCEKCSKKYAVLSDWKAHTKTC 164
                                              89*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.603.7E-56588IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.95E-76588No hitNo description
PROSITE profilePS5015710.8666688IPR007087Zinc finger, C2H2
SMARTSM003550.016688IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002806888IPR007087Zinc finger, C2H2
SMARTSM00355190107137IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.608.4E-5130163IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.95E-7137162No hitNo description
SMARTSM00355120142162IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 650 aa     Download sequence    Send to blast
MAAGSPLLGC FEEDQSSLAS KNHLNTSSAN SSSSAGNNPA QKRKRNHPNA EVIRLSPEEL  60
LATNRFVCEV CEKGFQREQN LQLHRRGHNL PWKLKAKSTK EARKKVYPCP EPTCVHHDDS  120
RALGDLTGIK KHYCRKHGEK KFKCEKCSKK YAVLSDWKAH TKTCGTREYK CDCGTIFSRR  180
DCFLSHRAFC DALAQETSKV PIALNTTGSN LYNSLGLGLS NVGSSISSLL DQNPNGGNNP  240
QIQGLGRNGA PQSFESLISP SNQAFFPSST IQTSFNENSQ NNGLLQNRSP SNSSNGFLQF  300
PQNNTSPSSI NMFVPSIFSN GPSNGYYTSD SFNYTTQSDV SSMFSSNFMS DPLGSSVSSL  360
LSQRILGESL FPHMSATSLL QKAEEMGGTS SRIGVSFPPK NANFISGSSG IQTVANLSSG  420
SETMIQKFTD FSSGSEAIQK VTNYSSGKDG FQKVANFSPG SEGIQSAANF SSAAEGFQKV  480
LNFGGGNEGI QKVPNFNGGG QGLQKVSNLS GGSEGLGEQL ENNQSHLLEL IESFTNGSSS  540
IFGGISGGLM TPPANFGGGY AMGNDEQDSG IGAYSEPNFS TLEQTVQADL HLTLAGDILT  600
RDFLGIGGVA TSFQSAISDG LNMASLEAEV KPGMFRGEKL GVRENWNHV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C7e-30138200365Zinc finger protein JACKDAW
5b3h_F7e-30138200365Zinc finger protein JACKDAW
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
192104KLKAKSTKEARKK
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor acting as a positive regulator of the starch synthase SS4. Controls chloroplast development and starch granule formation (PubMed:22898356). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). {ECO:0000269|PubMed:22898356, ECO:0000269|PubMed:24821766}.
UniProtTranscription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). {ECO:0000269|PubMed:24821766, ECO:0000305|PubMed:19726569}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by gibberellin. {ECO:0000305|PubMed:17933900}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011627572.10.0protein indeterminate-domain 2 isoform X2
SwissprotQ8GYC16e-99IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
SwissprotQ9ZUL38e-99IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBLU5D6M30.0U5D6M3_AMBTC; Uncharacterized protein
STRINGERN170420.0(Amborella trichopoda)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP9516242
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G02070.13e-85indeterminate(ID)-domain 5
Publications ? help Back to Top
  1. Amborella Genome Project
    The Amborella genome and the evolution of flowering plants.
    Science, 2013. 342(6165): p. 1241089
    [PMID:24357323]
  2. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]