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

XP_016482768.1

Organism

Nicotiana tabacum

Taxonomic ID

4097

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana

Family

C2H2

Protein Properties

Length: 491aa MW: 53472.3 Da PI: 9.3384

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_016482768.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.5	1.1e-05	75	97	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k F r nL+ H r H XP_016482768.1 75 FVCEVCNKGFQREQNLQLHRRGH 97 89*******************88 PP
2	zf-C2H2	15.4	5.5e-05	151	173	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ykC++C+k + +s+ k H +t+ XP_016482768.1 151 YKCEKCSKKYAVQSDWKAHTKTC 173 9********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	6.6E-6	74	97	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.93E-8	74	97	No hit	No description
Pfam	PF12171	3.1E-5	75	97	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	11.094	75	97	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0041	75	97	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	77	97	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	116	146	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.2E-5	139	172	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.93E-8	146	171	No hit	No description
SMART	SM00355	71	151	171	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: 491 aa Download sequence Send to blast
MAAGPSSAVF LAMREEEQNQ QMKQQQQQQQ ELHIQQQPQQ QQAPQKKRRN QPGTPNPDAE 60 IIALSPKTLM ATNRFVCEVC NKGFQREQNL QLHRRGHNLP WKLKQKSTKE VKRKVYLCPE 120 PTCVHHDPSR ALGDLTGIKK HYSRKHGEKK YKCEKCSKKY AVQSDWKAHT KTCGTREYKC 180 DCGTLFSRRD SFITHRAFCD ALAQESARNP PSLSSIGSHL YGSSNNMSLG LSKMGSQISD 240 HSNSTDILHF GSSSNIKTSG QFDHSNLMGT TSIGASAFRP STSFFLPADQ TNHQDYAANK 300 PSIHGLMQLP DLHNNGNNNS SPSVASMFNL NFFQNSNNNS ENVGSHGNSN ISAGGGGLLL 360 PSHQFSNSSG DGSNNSSNMF SASSLLGTDH HISSSIPSLY GNHLNNNSSA SPAPPMSATA 420 LLQKAAQMGS TTSNNNMNNS SASLLKAFGS SSSATKSDIH PPPPVNFGSV VYGDPLSENH 480 LHDLVVNAYV M

Sequence ? help Back to Top

Protein Sequence Length: 491 aa Download sequence Send to blast

MAAGPSSAVF LAMREEEQNQ QMKQQQQQQQ ELHIQQQPQQ QQAPQKKRRN QPGTPNPDAE  60
IIALSPKTLM ATNRFVCEVC NKGFQREQNL QLHRRGHNLP WKLKQKSTKE VKRKVYLCPE  120
PTCVHHDPSR ALGDLTGIKK HYSRKHGEKK YKCEKCSKKY AVQSDWKAHT KTCGTREYKC  180
DCGTLFSRRD SFITHRAFCD ALAQESARNP PSLSSIGSHL YGSSNNMSLG LSKMGSQISD  240
HSNSTDILHF GSSSNIKTSG QFDHSNLMGT TSIGASAFRP STSFFLPADQ TNHQDYAANK  300
PSIHGLMQLP DLHNNGNNNS SPSVASMFNL NFFQNSNNNS ENVGSHGNSN ISAGGGGLLL  360
PSHQFSNSSG DGSNNSSNMF SASSLLGTDH HISSSIPSLY GNHLNNNSSA SPAPPMSATA  420
LLQKAAQMGS TTSNNNMNNS SASLLKAFGS SSSATKSDIH PPPPVNFGSV VYGDPLSENH  480
LHDLVVNAYV M

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	9e-34	147	208	3	64	Zinc finger protein JACKDAW
5b3h_F	9e-34	147	208	3	64	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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00255	DAP	Transfer from AT2G02070	Download

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	HG975440	1e-110	HG975440.1 Solanum pennellii chromosome ch01, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016482768.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic-like isoform X2
Swissprot	Q9ZUL3	1e-125	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A1S4B1V6	0.0	A0A1S4B1V6_TOBAC; protein indeterminate-domain 5, chloroplastic-like isoform X2
STRING	XP_009786293.1	0.0	(Nicotiana sylvestris)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02070.1	1e-106	indeterminate(ID)-domain 5

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]