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

Lsa015888

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: 391aa MW: 44706.4 Da PI: 8.6009

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
gnl\|UG\|Lsa#S58683490	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	18.8	4.4e-06	62	84	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 y+C++C++ F r nL+ H r+H Lsa015888 62 YVCEICNQGFQRDQNLQMHRRRH 84 9*********************9 PP
2	zf-C2H2	15.7	4.4e-05	139	161	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C +C+k + +s++k H++t+ Lsa015888 139 WVCDKCSKGYAVQSDYKAHLKTC 161 58*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	1.5E-5	61	84	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.25E-6	61	84	No hit	No description
SMART	SM00355	0.0052	62	84	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.97	62	84	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS01359	0	64	144	IPR019786	Zinc finger, PHD-type, conserved site
PROSITE pattern	PS00028	0	64	84	IPR007087	Zinc finger, C2H2
SMART	SM00355	210	103	133	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.8E-4	130	160	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.25E-6	134	159	No hit	No description
SMART	SM00355	65	139	166	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: 391 aa Download sequence Send to blast
MLETDHHHHH LHHNHHLPHA PPPTSSDHSL SCKRKRRPAG TPDPDAEVVS LSPKTLLESD 60 RYVCEICNQG FQRDQNLQMH RRRHKVPWKL LKRESPEVKK RVFVCPEPSC LHHDPCHALG 120 DLVGIKKHFR RKHSNNKQWV CDKCSKGYAV QSDYKAHLKT CGTRGHSCDC GRVFSRVESF 180 IEHQDACVVR HAHPDLTVFQ RICSSSNASN TSPSNDENLN ILGVMPRMQQ IHYHHKPSHS 240 QPQEKNIELQ LLPSSSLFEL KNNHETHLKL SIGTEVSFHT DEEKKMNMAM TEKAFADESR 300 QQAKRQIQMA ELEFANAKRI RQQAQGELER AKRQQEQVAK KVNLTILEVT CHSCKQRFQA 360 ASNKASTTIA DDTSFGLSYM SSAVTEGEGD Y

Sequence ? help Back to Top

Protein Sequence Length: 391 aa Download sequence Send to blast

MLETDHHHHH LHHNHHLPHA PPPTSSDHSL SCKRKRRPAG TPDPDAEVVS LSPKTLLESD  60
RYVCEICNQG FQRDQNLQMH RRRHKVPWKL LKRESPEVKK RVFVCPEPSC LHHDPCHALG  120
DLVGIKKHFR RKHSNNKQWV CDKCSKGYAV QSDYKAHLKT CGTRGHSCDC GRVFSRVESF  180
IEHQDACVVR HAHPDLTVFQ RICSSSNASN TSPSNDENLN ILGVMPRMQQ IHYHHKPSHS  240
QPQEKNIELQ LLPSSSLFEL KNNHETHLKL SIGTEVSFHT DEEKKMNMAM TEKAFADESR  300
QQAKRQIQMA ELEFANAKRI RQQAQGELER AKRQQEQVAK KVNLTILEVT CHSCKQRFQA  360
ASNKASTTIA DDTSFGLSYM SSAVTEGEGD Y

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	3e-17	137	187	5	55	Zinc finger protein JACKDAW
5b3h_F	3e-17	137	187	5	55	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription 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
UniProt	INDUCTION: Not regulated by auxin. {ECO:0000269\|PubMed:24039602}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_023763603.1	0.0	protein SHOOT GRAVITROPISM 5-like
Swissprot	F4IPE3	1e-148	IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBL	A0A2J6LEQ8	0.0	A0A2J6LEQ8_LACSA; Uncharacterized protein
STRING	POPTR_0008s13980.1	0.0	(Populus trichocarpa)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G68130.1	1e-147	indeterminate(ID)-domain 14

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] 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] 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] 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] 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]