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

Zjn_sc00007.1.g09550.1.sm.mkhc

Organism

Zoysia japonica

Taxonomic ID

309978

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Chloridoideae; Zoysieae; Zoysiinae; Zoysia

Family

C2H2

Protein Properties

Length: 166aa MW: 19542.7 Da PI: 9.834

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Zjn_sc00007.1.g09550.1.sm.mkhc	genome	ZGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	19.5	2.7e-06	43	65	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k F r nL+ H r H Zjn_sc00007.1.g09550.1.sm.mkhc 43 FVCEVCNKGFQREQNLQLHRRGH 65 89*******************88 PP
2	zf-C2H2	14.1	0.00014	120	142	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H + + Zjn_sc00007.1.g09550.1.sm.mkhc 120 WKCDKCTKRYAVQSDWKAHSKIC 142 58*****************9876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	6.81E-8	42	65	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.6E-6	42	65	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
Pfam	PF12171	7.4E-6	43	65	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	11.094	43	65	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0041	43	65	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	45	65	IPR007087	Zinc finger, C2H2
SMART	SM00355	150	85	115	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	9.1E-5	108	141	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	6.81E-8	115	140	No hit	No description
SMART	SM00355	160	120	140	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: 166 aa Download sequence Send to blast
MEKKRASLFL LLSWFVTYTY ETPDPDAEVI ALTPKTLMAT NRFVCEVCNK GFQREQNLQL 60 HRRGHNLPWK LKQKDPSQAQ RRRVYTCPEP TCAHHDPARA LGDLTGIKKH FCRKHGEKKW 120 KCDKCTKRYA VQSDWKAHSK ICGTREYRCD CGTLFSRYVL LVLYVY

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-21	116	164	3	51	Zinc finger protein JACKDAW
5b3h_F	2e-21	116	164	3	51	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor acting as a positive regulator of the starch synthase SS4. Controls chloroplast development and starch granule formation (PubMed:22898356). 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:22898356, ECO:0000269\|PubMed:24821766}.
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}.

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AY754864	1e-180	AY754864.1 Zea mays INDETERMINATE-related protein 10 mRNA, complete cds.
GenBank	BT054258	1e-180	BT054258.1 Zea mays full-length cDNA clone ZM_BFb0200O05 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001105281.2	1e-102	INDETERMINATE-related protein 10
Swissprot	Q8GYC1	3e-89	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
Swissprot	Q9ZUL3	1e-88	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A3L6EVK8	1e-100	A0A3L6EVK8_MAIZE; Protein indeterminate-domain 5, chloroplastic
TrEMBL	B7ZY66	1e-100	B7ZY66_MAIZE; Indeterminate domain p10
STRING	Sb04g032140.1	1e-100	(Sorghum bicolor)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP202	38	320

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02080.1	1e-91	indeterminate(ID)-domain 4

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