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 PSME_00020819-RA
Organism
Pseudotsuga menziesii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Acrogymnospermae; Pinidae; Pinales; Pinaceae; Pseudotsuga
Family C2H2
Protein Properties Length: 539aa    MW: 60451.1 Da    PI: 8.1835
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PSME_00020819-RAgenomePRSView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H2171.7e-0597119123
                       EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                       y+C++C + F r  nL+ H r+H
  PSME_00020819-RA  97 YVCEICEQGFQRDQNLQMHRRRH 119
                       9*********************9 PP
2zf-C2H216.81.9e-05175197123
                       EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                       ++C++C+k +  +s++k H++t+
  PSME_00020819-RA 175 WTCEKCSKAYAVQSDYKAHLKTC 197
                       58*******************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.88E-596119No hitNo description
Gene3DG3DSA:3.30.160.607.8E-596119IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.01397119IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.74197119IPR007087Zinc finger, C2H2
PROSITE patternPS00028099119IPR007087Zinc finger, C2H2
SMARTSM00355100139169IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.6E-4166196IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.88E-5170195No hitNo description
SMARTSM0035548175202IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009630Biological Processgravitropism
GO:0009965Biological Processleaf morphogenesis
GO:0010601Biological Processpositive regulation of auxin biosynthetic process
GO:0048444Biological Processfloral organ morphogenesis
GO:2000012Biological Processregulation of auxin polar transport
GO:2000904Biological Processregulation of starch metabolic process
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043621Molecular Functionprotein self-association
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046872Molecular Functionmetal ion binding
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 539 aa     Download sequence    Send to blast
MNYVSINVWG SALFLEQMAE ILTEPGTPCS SANSARLLHG PSSPSQSISQ QSYNKSSVPP  60
VSHETSNKRM RRPAGTPDPE AEVVSLSPKT LMESDRYVCE ICEQGFQRDQ NLQMHRRRHK  120
VPWKLLKRET TDARNKRVFV CPEPTCLHHS PSHALGDLVG IKKHFRRKHS SSKQWTCEKC  180
SKAYAVQSDY KAHLKTCGTR GHTCDCGRVF SRVESFIEHQ DDCTATKEKM ADDGQLSMPC  240
SSTRISSLNT FNATETVGLF TATVSRGIDC GRLEPSSSSV EQRQELQFMP SKQQGASETS  300
EFSQPYSKPA EAISSPRLQL SIGLGTEITE NKLYEGGPER IKEETEQQKN LMMRVAYDEI  360
AYAEHVRRVA KRQLELADIE FERAKKMREQ AHAELDKARL LKDKATREIA EATISPPEIT  420
CRSCHRQFQW PQQYQSPSLS GFLSISNLQE EGGADDENSH GKIFPAVSMM RYMHFSNPAV  480
IEIDEGNQDK MQMSLFALGA PALIPSPSQE RSNPRGQLHV PVSRTLSSSV TSSRKIKPN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C6e-19173237569Zinc finger protein JACKDAW
5b3h_F6e-19173237569Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor involved in inflorescence stems gravitropism, probably by regulating starch accumulation in amyloplasts of graviperceptive cells. Required for stem circumnutation movements. Regulates lateral organ morphogenesis and gravitropic responses (PubMed:24039602). Acts cooperatively with IDD16 to control silique and branche orientation (PubMed:24039602). Involved in the establishment of auxin gradients through the regulation of auxin biosynthesis and transport (PubMed:24039602). {ECO:0000269|PubMed:16813575, ECO:0000269|PubMed:18259878, ECO:0000269|PubMed:24039602, ECO:0000269|PubMed:9210330}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not regulated by auxin. {ECO:0000269|PubMed:24039602}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankFJ0481635e-77FJ048163.2 Pinus taeda isolate 6077 anonymous locus 0_12050_01 genomic sequence.
GenBankFJ0481645e-77FJ048164.2 Pinus taeda isolate 6080 anonymous locus 0_12050_01 genomic sequence.
GenBankFJ0481655e-77FJ048165.2 Pinus taeda isolate 6087 anonymous locus 0_12050_01 genomic sequence.
GenBankFJ0481665e-77FJ048166.2 Pinus taeda isolate 6091 anonymous locus 0_12050_01 genomic sequence.
GenBankFJ0481675e-77FJ048167.2 Pinus taeda isolate 6075 anonymous locus 0_12050_01 genomic sequence.
GenBankFJ0481685e-77FJ048168.2 Pinus taeda isolate 6088 anonymous locus 0_12050_01 genomic sequence.
GenBankFJ0481695e-77FJ048169.2 Pinus taeda isolate 6085 anonymous locus 0_12050_01 genomic sequence.
GenBankFJ0481705e-77FJ048170.2 Pinus taeda isolate 6089 anonymous locus 0_12050_01 genomic sequence.
GenBankFJ0481715e-77FJ048171.2 Pinus taeda isolate 6074 anonymous locus 0_12050_01 genomic sequence.
GenBankFJ0481725e-77FJ048172.2 Pinus taeda isolate 6086 anonymous locus 0_12050_01 genomic sequence.
GenBankFJ0481735e-77FJ048173.2 Pinus taeda isolate 6076 anonymous locus 0_12050_01 genomic sequence.
GenBankFJ0481745e-77FJ048174.2 Pinus taeda isolate 6081 anonymous locus 0_12050_01 genomic sequence.
GenBankFJ0481755e-77FJ048175.2 Pinus taeda isolate 6079 anonymous locus 0_12050_01 genomic sequence.
GenBankFJ0481765e-77FJ048176.2 Pinus taeda isolate 6090 anonymous locus 0_12050_01 genomic sequence.
GenBankFJ0481775e-77FJ048177.2 Pinus taeda isolate 6078 anonymous locus 0_12050_01 genomic sequence.
GenBankFJ0481785e-77FJ048178.2 Pinus taeda isolate 6082 anonymous locus 0_12050_01 genomic sequence.
GenBankFJ0481795e-77FJ048179.2 Pinus taeda isolate 6083 anonymous locus 0_12050_01 genomic sequence.
GenBankFJ0481805e-77FJ048180.2 Pinus taeda isolate 6084 anonymous locus 0_12050_01 genomic sequence.
GenBankJQ2617665e-77JQ261766.1 Pinus radiata isolate 6092 hypothetical protein (0_12050_01) gene, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006378427.11e-130protein SHOOT GRAVITROPISM 5 isoform X1
SwissprotF4IPE31e-119IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBLA0A2R6QHZ31e-130A0A2R6QHZ3_ACTCH; Protein SHOOT GRAVITROPISM like
STRINGPOPTR_0010s11160.11e-129(Populus trichocarpa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G01940.11e-112C2H2-like zinc finger protein
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Kim JY,Ryu JY,Baek K,Park CM
    High temperature attenuates the gravitropism of inflorescence stems by inducing SHOOT GRAVITROPISM 5 alternative splicing in Arabidopsis.
    New Phytol., 2016. 209(1): p. 265-79
    [PMID:26256266]
  3. Ryu JY,Kim JY,Park CM
    Adaptive thermal control of stem gravitropism through alternative RNA splicing in Arabidopsis.
    Plant Signal Behav, 2015. 10(11): p. e1093715
    [PMID:26452406]
  4. Qu Y, et al.
    Peroxisomal CuAOζ and its product H2O2 regulate the distribution of auxin and IBA-dependent lateral root development in Arabidopsis.
    J. Exp. Bot., 2017. 68(17): p. 4851-4867
    [PMID:28992128]
  5. Shi H, et al.
    Zinc finger of Arabidopsis thaliana 6 is involved in melatonin-mediated auxin signaling through interacting INDETERMINATE DOMAIN15 and INDOLE-3-ACETIC ACID 17.
    J. Pineal Res., 2018. 65(2): p. e12494
    [PMID:29607541]