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

PGSC0003DMP400009135

Common Name

LOC102594833

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: 507aa MW: 54772.4 Da PI: 8.1088

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PGSC0003DMP400009135	genome	PGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.2	1.4e-05	54	76	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H PGSC0003DMP400009135 54 FVCEICNKGFQRDQNLQLHRRGH 76 89*******************88 PP
2	zf-C2H2	13.7	0.00019	130	152	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC+ C+k + +s+ k H++t+ PGSC0003DMP400009135 130 FKCERCTKKYAVHSDWKAHMKTC 152 89*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	1.7E-5	53	76	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	6.91E-7	53	76	No hit	No description
PROSITE profile	PS50157	10.949	54	76	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.017	54	76	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	8.1E-5	54	76	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	56	76	IPR007087	Zinc finger, C2H2
SMART	SM00355	230	95	125	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.3E-4	118	151	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	6.91E-7	125	151	No hit	No description
SMART	SM00355	73	130	150	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: 507 aa Download sequence Send to blast
MADIEKLAGS GSLEESITQQ NFPVKRRRNL PGNPDPEAEV IALSPKTLMA TNRFVCEICN 60 KGFQRDQNLQ LHRRGHNLPW KLRQRTSNEV KKRVYVCPES SCVHHDPSRA LGDLTGIKKH 120 FCRKHGEKKF KCERCTKKYA VHSDWKAHMK TCGTREYRCD CGTLFSRRDS FITHRAFCDA 180 LAQESARSHQ PLMEDTNAEG DLKVDEAINK TVSSSSSPPP QPLTPSTGVL SPVLSIHSSE 240 LPVENQNQGG VQLQQAQGTT THVSTTPVIT ISTAAASGPS SSKVFASVFP SSSSAQHVNS 300 SYSDILRAIE TEQVMAVEPM SLSLSSSLYL SNNGPSLFQE HTGGHSHGHG QHYGSATMQP 360 ALSATALLQK AAQMGSTTSN NSFLRGLGLA MSSSTSTPEE NLLARRTNSL GHVKLESNIN 420 AEVPGLGIQL HGHSGFTDFR MGPSISHQTS MMFGSKPPTL DFLGLGNGAS VTPSNGFSAF 480 LSSMEDGFGV VAEPWDDPSD RKPAML*

Sequence ? help Back to Top

Protein Sequence Length: 507 aa Download sequence Send to blast

MADIEKLAGS GSLEESITQQ NFPVKRRRNL PGNPDPEAEV IALSPKTLMA TNRFVCEICN  60
KGFQRDQNLQ LHRRGHNLPW KLRQRTSNEV KKRVYVCPES SCVHHDPSRA LGDLTGIKKH  120
FCRKHGEKKF KCERCTKKYA VHSDWKAHMK TCGTREYRCD CGTLFSRRDS FITHRAFCDA  180
LAQESARSHQ PLMEDTNAEG DLKVDEAINK TVSSSSSPPP QPLTPSTGVL SPVLSIHSSE  240
LPVENQNQGG VQLQQAQGTT THVSTTPVIT ISTAAASGPS SSKVFASVFP SSSSAQHVNS  300
SYSDILRAIE TEQVMAVEPM SLSLSSSLYL SNNGPSLFQE HTGGHSHGHG QHYGSATMQP  360
ALSATALLQK AAQMGSTTSN NSFLRGLGLA MSSSTSTPEE NLLARRTNSL GHVKLESNIN  420
AEVPGLGIQL HGHSGFTDFR MGPSISHQTS MMFGSKPPTL DFLGLGNGAS VTPSNGFSAF  480
LSSMEDGFGV VAEPWDDPSD RKPAML*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-32	126	187	3	64	Zinc finger protein JACKDAW
5b3h_F	1e-32	126	187	3	64	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	PGSC0003DMP400009135

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	BT013478	0.0	BT013478.1 Lycopersicon esculentum clone 132154R, mRNA sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015161879.1	0.0	PREDICTED: protein indeterminate-domain 2-like
Swissprot	Q9LVQ7	1e-129	IDD1_ARATH; Zinc finger protein ENHYDROUS
TrEMBL	M1A2F2	0.0	M1A2F2_SOLTU; Uncharacterized protein
STRING	PGSC0003DMT400013174	0.0	(Solanum tuberosum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA103	24	350

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G50700.1	1e-112	indeterminate(ID)-domain 2

Link Out ? help Back to Top
Phytozome	PGSC0003DMP400009135
Entrez Gene	102594833

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] 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]