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

PGSC0003DMP400046793

Organism

Solanum tuberosum

Taxonomic ID

4113

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum

Family

C2H2

Protein Properties

Length: 342aa MW: 38752.9 Da PI: 9.881

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PGSC0003DMP400046793	genome	PGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17	1.6e-05	61	83	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k + +s++k H++t+ PGSC0003DMP400046793 61 WVCEKCNKGYAVQSDYKAHLKTC 83 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	1.4E-4	52	82	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain

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: 342 aa Download sequence Send to blast
MHRRRHKVPW KLLKRETPIV KKRVFVCPEP TCLHHDPCHA LGDLVGIKKH FRRKHSNHKQ 60 WVCEKCNKGY AVQSDYKAHL KTCGTRGHSC DCGRVFSRVE SFIEHQDLCS FGSLRSESQS 120 LIQLPSAPCL SRTASSPSPS SDHTNNLITT TNTVPWPNFI MKTPNAIIKK HNLELQLLTT 180 TTTTTSPSSP FDVSVSSKSR DDHNLQLSIG SSDLSEKNES ENNNNDTHRS RNGVEGLRQA 240 LAEKVYAEEA RKKGRREIEL AEEELGNARR IRRQAQMELE KAQVLKEEAI RKINFTLSQI 300 TCHACKQKFQ GKRITTTSIV PNSHHDQNIH LKYSTCPTSL H*

Sequence ? help Back to Top

Protein Sequence Length: 342 aa Download sequence Send to blast

MHRRRHKVPW KLLKRETPIV KKRVFVCPEP TCLHHDPCHA LGDLVGIKKH FRRKHSNHKQ  60
WVCEKCNKGY AVQSDYKAHL KTCGTRGHSC DCGRVFSRVE SFIEHQDLCS FGSLRSESQS  120
LIQLPSAPCL SRTASSPSPS SDHTNNLITT TNTVPWPNFI MKTPNAIIKK HNLELQLLTT  180
TTTTTSPSSP FDVSVSSKSR DDHNLQLSIG SSDLSEKNES ENNNNDTHRS RNGVEGLRQA  240
LAEKVYAEEA RKKGRREIEL AEEELGNARR IRRQAQMELE KAQVLKEEAI RKINFTLSQI  300
TCHACKQKFQ GKRITTTSIV PNSHHDQNIH LKYSTCPTSL H*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	5e-18	57	109	3	55	Zinc finger protein JACKDAW
5b3h_F	5e-18	57	109	3	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	PGSC0003DMP400046793

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

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	HG975445	0.0	HG975445.1 Solanum pennellii chromosome ch06, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006347364.1	0.0	PREDICTED: protein SHOOT GRAVITROPISM 5-like
Swissprot	F4IPE3	1e-102	IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
TrEMBL	M1CK93	0.0	M1CK93_SOLTU; Uncharacterized protein
TrEMBL	M1CK94	0.0	M1CK94_SOLTU; Uncharacterized protein
STRING	PGSC0003DMT400069306	0.0	(Solanum tuberosum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G01940.2	1e-100	C2H2-like zinc finger protein

Link Out ? help Back to Top
Phytozome	PGSC0003DMP400046793

Publications ? help Back to Top
Xu X, et al. Genome sequence and analysis of the tuber crop potato. Nature, 2011. 475(7355): p. 189-95 [PMID:21743474] 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]