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_016502969.1

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: 448aa MW: 50096.5 Da PI: 9.1017

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_016502969.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	14.5	0.0001	8	28	3	23
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C+ C+k F r nL+ H r H XP_016502969.1 8 CEVCNKGFQREQNLQLHRRGH 28 *******************88 PP
2	zf-C2H2	14.8	8.1e-05	83	105	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k + +s+ k H +t+ XP_016502969.1 83 FKCEKCSKKYAVQSDWKAHTKTC 105 89*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.09E-7	5	28	No hit	No description
Gene3D	G3DSA:3.30.160.60	8.3E-6	5	28	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
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	240	48	78	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	3.0E-5	71	104	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.09E-7	78	103	No hit	No description
SMART	SM00355	88	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: 448 aa Download sequence Send to blast
MATNRFLCEV CNKGFQREQN LQLHRRGHNL PWKLKQKNTK EVVKRKVYLC PEITCVHHET 60 SRALGDLTGI KKHYFRKHGE KKFKCEKCSK KYAVQSDWKA HTKTCGTREY RCDCGTLFSR 120 RDSFITHRAF CVALAQETAR NPVPIHNLGN FSKMQNSTIL DQKYPSSNSI DILSLGNTKT 180 THNQQFNHNL IDTSNIGSNT SNSFFFQESN QDYANIKPIH DLMQQLPNFH NNNMFNLNFF 240 QNNDGNSNMS SGILGDQNIS CSIPSLYGSQ VQNHNLNSTT TSSVAPMSAT ALLQKAAQMG 300 STTSNISTTA LLLKAFGNST NGGNSSSSGT KSDHQVVNFG DNFSDHSGNH LRDINGEAKN 360 FGTPADIVNG VNAYGHDQND YGGGYNAATK LNFEEQQHQL PPQKKQLTRD FLGVGEIVRS 420 MSGGFSSQRE QQQQQQSNQS FISPENFQ

Sequence ? help Back to Top

Protein Sequence Length: 448 aa Download sequence Send to blast

MATNRFLCEV CNKGFQREQN LQLHRRGHNL PWKLKQKNTK EVVKRKVYLC PEITCVHHET  60
SRALGDLTGI KKHYFRKHGE KKFKCEKCSK KYAVQSDWKA HTKTCGTREY RCDCGTLFSR  120
RDSFITHRAF CVALAQETAR NPVPIHNLGN FSKMQNSTIL DQKYPSSNSI DILSLGNTKT  180
THNQQFNHNL IDTSNIGSNT SNSFFFQESN QDYANIKPIH DLMQQLPNFH NNNMFNLNFF  240
QNNDGNSNMS SGILGDQNIS CSIPSLYGSQ VQNHNLNSTT TSSVAPMSAT ALLQKAAQMG  300
STTSNISTTA LLLKAFGNST NGGNSSSSGT KSDHQVVNFG DNFSDHSGNH LRDINGEAKN  360
FGTPADIVNG VNAYGHDQND YGGGYNAATK LNFEEQQHQL PPQKKQLTRD FLGVGEIVRS  420
MSGGFSSQRE QQQQQQSNQS FISPENFQ

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-31	79	140	3	64	Zinc finger protein JACKDAW
5b3h_F	1e-31	79	140	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}.

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	HG975443	1e-107	HG975443.1 Solanum pennellii chromosome ch04, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016502969.1	0.0	PREDICTED: protein indeterminate-domain 5, chloroplastic-like
Swissprot	Q9ZUL3	1e-101	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A1S4CPS6	0.0	A0A1S4CPS6_TOBAC; protein indeterminate-domain 5, chloroplastic-like
STRING	XP_009762293.1	0.0	(Nicotiana sylvestris)

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
AT2G02080.2	3e-83	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]