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

PH01000200G0080

Organism

Phyllostachys heterocycla

Taxonomic ID

38705

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Bambusoideae; Arundinarodae; Arundinarieae; Arundinariinae; Phyllostachys

Family

C2H2

Protein Properties

Length: 242aa MW: 27153.4 Da PI: 9.4567

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PH01000200G0080	genome	ICBR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	18.7	4.7e-06	116	138	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k F r nL+ H r H PH01000200G0080 116 FVCEVCNKGFQREQNLQLHRRGH 138 89*******************88 PP
2	zf-C2H2	14	0.00015	193	215	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H + + PH01000200G0080 193 WKCEKCSKRYAVQSDWKAHSKIC 215 58*****************9876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.21E-7	115	138	No hit	No description
Gene3D	G3DSA:3.30.160.60	2.7E-6	115	138	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.0041	116	138	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.094	116	138	IPR007087	Zinc finger, C2H2
Pfam	PF12171	1.3E-5	116	138	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	118	138	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	8.7E-5	181	214	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.21E-7	188	213	No hit	No description
SMART	SM00355	130	193	213	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: 242 aa Download sequence Send to blast
MASNSSAAAA AAFFGIRDGD QQDQIKPLIS QQQQQLAAVL PRMATAAPTP SSHGAPTAAP 60 PAKKKRNLPE CCPYIHTCMN QLIKLCVDWF CDSPEADPDA EVIALSPKTL MATNRFVCEV 120 CNKGFQREQN LQLHRRGHNL PWKLKQKDPA QVQRRRVYLC PEPTCVHHEP ARALGDLTGI 180 KKHFCRKHGE KKWKCEKCSK RYAVQSDWKA HSKICGTREY RCDCGTLFSR VRVLFALATW 240 L*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	9e-22	189	230	3	44	Zinc finger protein JACKDAW
5b3h_F	9e-22	189	230	3	44	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	PH01000200G0080

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	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AP004188	0.0	AP004188.3 Oryza sativa Japonica Group genomic DNA, chromosome 2, BAC clone:OJ1493_H11.
GenBank	AP014958	0.0	AP014958.1 Oryza sativa Japonica Group DNA, chromosome 2, cultivar: Nipponbare, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025824078.1	1e-114	protein indeterminate-domain 5, chloroplastic-like
Refseq	XP_025824079.1	1e-114	protein indeterminate-domain 5, chloroplastic-like
Refseq	XP_025824080.1	1e-114	protein indeterminate-domain 5, chloroplastic-like
Refseq	XP_025824082.1	1e-114	protein indeterminate-domain 5, chloroplastic-like
Refseq	XP_025824083.1	1e-114	protein indeterminate-domain 5, chloroplastic-like
Swissprot	Q8GYC1	9e-87	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	A0A1E5W4N3	1e-113	A0A1E5W4N3_9POAL; Protein indeterminate-domain 4, chloroplastic
STRING	Pavir.Gb01057.1.p	1e-117	(Panicum virgatum)

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	8e-87	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]