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

Lsa004501

Organism

Lactuca sativa

Taxonomic ID

4236

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; campanulids; Asterales; Asteraceae; Cichorioideae; Cichorieae; Lactucinae; Lactuca

Family

C2H2

Protein Properties

Length: 236aa MW: 26559.2 Da PI: 9.599

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
gnl\|UG\|Lsa#S58679645	PU_ref	Unigene	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	18.5	5.4e-06	61	83	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H Lsa004501 61 FVCEICNKGFQRDQNLQLHRRGH 83 89*******************88 PP
2	zf-C2H2	17.1	1.6e-05	137	159	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC+ C+k + +s+ k H++t+ Lsa004501 137 WKCERCSKKYAVQSDWKAHMKTC 159 58*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.89E-8	60	83	No hit	No description
Gene3D	G3DSA:3.30.160.60	6.3E-6	60	83	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.017	61	83	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	3.1E-5	61	83	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	10.949	61	83	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	63	83	IPR007087	Zinc finger, C2H2
SMART	SM00355	110	102	132	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	5.8E-6	125	158	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.89E-8	132	158	No hit	No description
SMART	SM00355	77	137	157	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 236 aa Download sequence Send to blast
MAVSATSVEG TECSSGGNET APNPPPELQP IKKKRNLPGM PDPDAEVIAL SPTTLLATNR 60 FVCEICNKGF QRDQNLQLHR RGHNLPWKLK QRDGKEIRKR VYVCPEKTCI HHDPSRALGD 120 LTGIKKHFSR KHGEKKWKCE RCSKKYAVQS DWKAHMKTCG TKEYRCDCGT LFSRRDSFIT 180 HRAFCDALAQ ESARSQSQSQ TPSLPITNSN HHNHLQETEK VQAAILPPSC SPPPPR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	3e-36	133	200	3	70	Zinc finger protein JACKDAW
5b3h_F	3e-36	133	200	3	70	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor promoting the transition to germination by regulating light and hormonal signaling during seed maturation (PubMed:21571950). Acts as a positive regulator of phytochrome and/or gibberellin action (PubMed:21571950, PubMed:25035403). {ECO:0000269\|PubMed:21571950, ECO:0000269\|PubMed:25035403}.
UniProt	Transcription factor that acts as a positive regulator of gibberellin (GA) action, homeostasis and signaling. GA converts the GAF1 complex from transcriptional activator to repressor via the degradation of DELLA proteins. {ECO:0000269\|PubMed:25035403}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_023765277.1	1e-177	protein indeterminate-domain 2-like isoform X1
Refseq	XP_023765278.1	1e-177	protein indeterminate-domain 2-like isoform X2
Swissprot	Q9LVQ7	1e-111	IDD1_ARATH; Zinc finger protein ENHYDROUS
Swissprot	Q9SCQ6	1e-112	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A2J6LAK6	1e-176	A0A2J6LAK6_LACSA; Uncharacterized protein
STRING	VIT_18s0001g12220.t01	1e-120	(Vitis vinifera)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G50700.1	1e-107	indeterminate(ID)-domain 2

Publications ? help Back to Top
Fukazawa J, et al. DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis. Plant Cell, 2014. 26(7): p. 2920-38 [PMID:25035403] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755] Khare D, et al. Root avoidance of toxic metals requires the GeBP-LIKE 4 transcription factor in Arabidopsis thaliana. New Phytol., 2017. 213(3): p. 1257-1273 [PMID:27768815]