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_009762294.1

Organism

Nicotiana sylvestris

Taxonomic ID

4096

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: 505aa MW: 56360.6 Da PI: 9.1923

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009762294.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	14.3	0.00012	65	85	3	23
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C+ C+k F r nL+ H r H XP_009762294.1 65 CEVCNKGFQREQNLQLHRRGH 85 *******************88 PP
2	zf-C2H2	14.6	9.4e-05	140	162	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k + +s+ k H +t+ XP_009762294.1 140 FKCEKCSKKYAVQSDWKAHTKTC 162 89*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	9.6E-6	62	85	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.88E-7	62	85	No hit	No description
PROSITE profile	PS50157	10.97	63	85	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.025	63	85	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	65	85	IPR007087	Zinc finger, C2H2
SMART	SM00355	270	105	135	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	3.5E-5	128	161	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.88E-7	135	160	No hit	No description
SMART	SM00355	88	140	160	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: 505 aa Download sequence Send to blast
MNIQQEVFLQ QQQYTLAPSS SMAQTQAQAT PTKKRRNQPG TTPYPDAEVI ALSPKSLMAT 60 NRFLCEVCNK GFQREQNLQL HRRGHNLPWK LKQKNTKEVV KRKVYLCPEI TCVHHEISRA 120 LGDLTGIKKH YFRKHGEKKF KCEKCSKKYA VQSDWKAHTK TCGTREYRCD CGTLFSRRDS 180 FITHRAFCVA LAQETARNPV PIHNLGNFSK MQNSTILDQK YPSSNSIDIL SLGNTKTTHN 240 QQFNHNLIDT SNIGSNTSNS FFFQESNQDY ANIKPIHDLM QQLPNFHNNN MFNLNFFQNN 300 DGNSNMSSGI LGDQNISCSI PSLYGSQVQN HNLNSTTTSS VAPMSATALL QKAAQMGSTT 360 SNISTTALLL KAFGNSTNGG NSSSSGTKSD HQVVNFGDNF SDHSGNHLHD INGEAKNFGT 420 PADIVNGVNA YGHDQNDYGG GYNAATKLNF EEQQHQLPPQ KKQLTRDFLG VGEIVRSMSG 480 GFSSQREQQQ QQQSNQGFIS PENFQ

Sequence ? help Back to Top

Protein Sequence Length: 505 aa Download sequence Send to blast

MNIQQEVFLQ QQQYTLAPSS SMAQTQAQAT PTKKRRNQPG TTPYPDAEVI ALSPKSLMAT  60
NRFLCEVCNK GFQREQNLQL HRRGHNLPWK LKQKNTKEVV KRKVYLCPEI TCVHHEISRA  120
LGDLTGIKKH YFRKHGEKKF KCEKCSKKYA VQSDWKAHTK TCGTREYRCD CGTLFSRRDS  180
FITHRAFCVA LAQETARNPV PIHNLGNFSK MQNSTILDQK YPSSNSIDIL SLGNTKTTHN  240
QQFNHNLIDT SNIGSNTSNS FFFQESNQDY ANIKPIHDLM QQLPNFHNNN MFNLNFFQNN  300
DGNSNMSSGI LGDQNISCSI PSLYGSQVQN HNLNSTTTSS VAPMSATALL QKAAQMGSTT  360
SNISTTALLL KAFGNSTNGG NSSSSGTKSD HQVVNFGDNF SDHSGNHLHD INGEAKNFGT  420
PADIVNGVNA YGHDQNDYGG GYNAATKLNF EEQQHQLPPQ KKQLTRDFLG VGEIVRSMSG  480
GFSSQREQQQ QQQSNQGFIS PENFQ

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	5e-32	136	197	3	64	Zinc finger protein JACKDAW
5b3h_F	5e-32	136	197	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}.

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	HG975443	1e-114	HG975443.1 Solanum pennellii chromosome ch04, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009762293.1	0.0	PREDICTED: zinc finger protein JACKDAW-like isoform X1
Swissprot	Q8GYC1	1e-117	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	A0A1U7V7C0	0.0	A0A1U7V7C0_NICSY; zinc finger protein JACKDAW-like isoform X1
STRING	XP_009762293.1	0.0	(Nicotiana sylvestris)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02080.1	2e-99	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]