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

PGSC0003DMP400051364

Common Name

LOC102591583

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: 460aa MW: 50997.6 Da PI: 9.2514

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PGSC0003DMP400051364	genome	PGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	14.5	0.00011	8	28	3	23
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C+ C+k F r nL+ H r H PGSC0003DMP400051364 8 CEVCNKGFQREQNLQLHRRGH 28 *******************88 PP
2	zf-C2H2	13	0.00031	83	105	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k + ks+ k H +t+ PGSC0003DMP400051364 83 FKCEKCSKKYAVKSDWKAHSKTC 105 89*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	8.5E-6	5	28	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	6.59E-8	5	28	No hit	No description
PROSITE profile	PS50157	10.97	6	28	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.025	6	28	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	8	28	IPR007087	Zinc finger, C2H2
SMART	SM00355	160	48	78	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.3E-5	71	104	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	6.59E-8	78	103	No hit	No description
SMART	SM00355	82	83	103	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: 460 aa Download sequence Send to blast
MATNRFLCEV CNKGFQREQN LQLHRRGHNL PWKLKQKNTK EVAKRKVYLC PEPTCVHHEP 60 SRALGDLTGI KKHYFRKHGE KKFKCEKCSK KYAVKSDWKA HSKTCGTREY RCDCGTLFSR 120 RDSFITHRAF CDALVQENAR NILSPNSLMN TLGMNNNQYL YGSSSNINLG TFSKLGNNNN 180 NITKTTTSGV QFDHHHDNNL IGSSTTTTTT NNPFFLQETN QDYNPNNNIK PLMVHGLMQL 240 PNLDQNNDNN NSSSTMFNLN FFQNNLSTNS GILGDHHHDN NNISCSIPSL YGVQVLESSN 300 TTCSSGPIMS ATALLQKAAQ MGSSSTSNIS ATASLFKAFG STSGSSSSGT KSDHPAFNFG 360 SDITDGGIIN AYGGGSHEGL YNTSTKLNFE QHQGPPQKKQ LTRDFLGVGE IVRSMNGRFS 420 TQREQQQQQN NGLNNMMSSL LDPERNQIQQ SFGSATNFQ*

Sequence ? help Back to Top

Protein Sequence Length: 460 aa Download sequence Send to blast

MATNRFLCEV CNKGFQREQN LQLHRRGHNL PWKLKQKNTK EVAKRKVYLC PEPTCVHHEP  60
SRALGDLTGI KKHYFRKHGE KKFKCEKCSK KYAVKSDWKA HSKTCGTREY RCDCGTLFSR  120
RDSFITHRAF CDALVQENAR NILSPNSLMN TLGMNNNQYL YGSSSNINLG TFSKLGNNNN  180
NITKTTTSGV QFDHHHDNNL IGSSTTTTTT NNPFFLQETN QDYNPNNNIK PLMVHGLMQL  240
PNLDQNNDNN NSSSTMFNLN FFQNNLSTNS GILGDHHHDN NNISCSIPSL YGVQVLESSN  300
TTCSSGPIMS ATALLQKAAQ MGSSSTSNIS ATASLFKAFG STSGSSSSGT KSDHPAFNFG  360
SDITDGGIIN AYGGGSHEGL YNTSTKLNFE QHQGPPQKKQ LTRDFLGVGE IVRSMNGRFS  420
TQREQQQQQN NGLNNMMSSL LDPERNQIQQ SFGSATNFQ*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-34	79	140	3	64	Zinc finger protein JACKDAW
5b3h_F	2e-34	79	140	3	64	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). 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). {ECO:0000269\|PubMed:24821766, ECO:0000305\|PubMed:19726569}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00256	DAP	Transfer from AT2G02080	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	PGSC0003DMP400051364

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by gibberellin. {ECO:0000305\|PubMed:17933900}.

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	HG975443	0.0	HG975443.1 Solanum pennellii chromosome ch04, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006355018.1	0.0	PREDICTED: protein indeterminate-domain 4, chloroplastic-like isoform X2
Swissprot	Q8GYC1	1e-110	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	M1CVT3	0.0	M1CVT3_SOLTU; Uncharacterized protein
STRING	PGSC0003DMT400075837	0.0	(Solanum tuberosum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02080.2	9e-94	indeterminate(ID)-domain 4

Link Out ? help Back to Top
Phytozome	PGSC0003DMP400051364
Entrez Gene	102591583

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] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]