PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Spipo13G0019100
Organism
Spirodela polyrhiza
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Alismatales; Araceae; Lemnoideae; Spirodela
Family C2H2
Protein Properties Length: 241aa    MW: 26184.4 Da    PI: 9.0928
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Spipo13G0019100genomeMIPS/IBISView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H222.92.2e-076585323
                     ETTTTEEESSHHHHHHHHHHT CS
          zf-C2H2  3 CpdCgksFsrksnLkrHirtH 23
                     C+ Cgk F+r+ nL+ H r H
  Spipo13G0019100 65 CEVCGKEFRRSQNLQIHRRGH 85
                     *******************88 PP
2zf-C2H212.80.00036144166123
                      EEETTTTEEESSHHHHHHHHHHT CS
          zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                      +kC+ C+ks+  + + + H r++
  Spipo13G0019100 144 WKCEGCPKSYAVRADWMAHARVC 166
                      58******************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.601.3E-76185IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576676.29E-96185No hitNo description
SMARTSM003550.0116385IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.7396385IPR007087Zinc finger, C2H2
PROSITE patternPS0002806585IPR007087Zinc finger, C2H2
SMARTSM0035584109139IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.8E-5132165IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576676.29E-9139164No hitNo description
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: 241 aa     Download sequence    Send to blast
MESPPPPPMA GDGTAISAEE KPSPGQPADA KRGRRRGPSG TEADTEAEVV ALSPRTLLST  60
RSFLCEVCGK EFRRSQNLQI HRRGHNLPWK LGEGGRPATG GAAGRKRLFV CPEETCAHHH  120
PSRALADITG IKKHYSRKHG EKQWKCEGCP KSYAVRADWM AHARVCGSRR YECHCGTLFS  180
RKESFFIHRA ACSGAAEHSD GASSCGPTND FNSEVLFPSM WGRASQSAME ERAPSPTTRS  240
*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-22140209372Zinc finger protein JACKDAW
5b3h_F2e-22140209372Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. {ECO:0000305}.
UniProtTranscription factor that regulates tissue boundaries and asymmetric cell division (PubMed:17785527, PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:17785527, PubMed:25829440). Interacts with the SCR and MGP promoters (PubMed:21935722). Does not show transcription activity by itself, but regulates the transcription of downstream genes through interaction with other transcription factors (PubMed:21935722). 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). Positively involved in gibberellic acid (GA) signaling (PubMed:24821766). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:21935722, ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by the transcription factor JKD, and down-regulated by SHR, SCR and itself. {ECO:0000269|PubMed:21935722}.
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_008805552.16e-85protein indeterminate-domain 9-like
SwissprotO227593e-70IDD12_ARATH; Protein indeterminate-domain 12
SwissprotQ9ZWA61e-69IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBLA0A2H3YYH31e-83A0A2H3YYH3_PHODC; protein indeterminate-domain 9-like
STRINGXP_008805552.12e-84(Phoenix dactylifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP105138124
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G02670.17e-71indeterminate(ID)-domain 12
Publications ? help Back to Top
  1. Muñoz-Strale D,León G
    Identification of two highly specific pollen promoters using transcriptomic data.
    Plant Physiol. Biochem., 2014. 83: p. 292-9
    [PMID:25208507]
  2. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]