PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Amygdaleae; Prunus

Family

C2H2

Protein Properties

Length: 608aa MW: 65299.1 Da PI: 9.5224

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Prupe.1G341100.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.1	3.2e-05	82	104	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Prupe.1G341100.1.p 82 FICEVCNKGFQREQNLQLHRRGH 104 89*******************88 PP
2	zf-C2H2	13.1	0.00029	158	180	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Prupe.1G341100.1.p 158 WKCEKCSKRYAVQSDWKAHSKTC 180 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	6.8E-6	81	104	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.39E-7	81	104	No hit	No description
PROSITE profile	PS50157	10.99	82	104	IPR007087	Zinc finger, C2H2
Pfam	PF12171	3.0E-5	82	104	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.0052	82	104	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	84	104	IPR007087	Zinc finger, C2H2
SMART	SM00355	160	123	153	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	7.4E-5	146	179	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.39E-7	153	178	No hit	No description
SMART	SM00355	130	158	178	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: 608 aa Download sequence Send to blast
MAAASSSIPF FGSTSSREET QSQMTSTLQQ HSSATPSSNT TAAAAAAAPP PQKKRRNQPG 60 NPNPDAEVIA LSPKTLMATN RFICEVCNKG FQREQNLQLH RRGHNLPWKL KQKTTKEPRR 120 KVYLCPEPTC VHHDPSRALG DLTGIKKHFS RKHGEKKWKC EKCSKRYAVQ SDWKAHSKTC 180 GTREYRCDCG TLFSRRDSFI THRAFCDALA QESARHPSSL NTMGGQLYGN NHMSLGLSQI 240 PSLQNQTHLP NNMLRLGNAG GAKYEHLITP SNPSSFGSQA MPNSSNFFMR DIANQQGFQD 300 QHQFPSKAAL HGLMQLPDLQ SNGNNNNSPS STSAANLFNL SFFSNNSTSS SLTPPDHQFS 360 DGNGGGQGFS MGAGDHHTMG SATLPSLYGN SMQHESNIAS HMSATALLQK AAQMGSTTST 420 ESSSLLRGLG NSSTRAAKSG RQLVAAPSTV GVSFSGDHHS GGEQQHLRSS QQVDNENHLQ 480 GLMNSLASGA SSVFGGGGVH GQDHNSFGGF SSGSTGTRVN AMDQQHNNTN YDEAKLHQNL 540 GVNFGGSDKL TLDFLGVGGM VQNMSGGHGY SQRDHHQQHH GINMIGTLDP DLKSAQTRQP 600 FGGTAMQ*

Sequence ? help Back to Top

Protein Sequence Length: 608 aa Download sequence Send to blast

MAAASSSIPF FGSTSSREET QSQMTSTLQQ HSSATPSSNT TAAAAAAAPP PQKKRRNQPG  60
NPNPDAEVIA LSPKTLMATN RFICEVCNKG FQREQNLQLH RRGHNLPWKL KQKTTKEPRR  120
KVYLCPEPTC VHHDPSRALG DLTGIKKHFS RKHGEKKWKC EKCSKRYAVQ SDWKAHSKTC  180
GTREYRCDCG TLFSRRDSFI THRAFCDALA QESARHPSSL NTMGGQLYGN NHMSLGLSQI  240
PSLQNQTHLP NNMLRLGNAG GAKYEHLITP SNPSSFGSQA MPNSSNFFMR DIANQQGFQD  300
QHQFPSKAAL HGLMQLPDLQ SNGNNNNSPS STSAANLFNL SFFSNNSTSS SLTPPDHQFS  360
DGNGGGQGFS MGAGDHHTMG SATLPSLYGN SMQHESNIAS HMSATALLQK AAQMGSTTST  420
ESSSLLRGLG NSSTRAAKSG RQLVAAPSTV GVSFSGDHHS GGEQQHLRSS QQVDNENHLQ  480
GLMNSLASGA SSVFGGGGVH GQDHNSFGGF SSGSTGTRVN AMDQQHNNTN YDEAKLHQNL  540
GVNFGGSDKL TLDFLGVGGM VQNMSGGHGY SQRDHHQQHH GINMIGTLDP DLKSAQTRQP  600
FGGTAMQ*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-34	154	221	3	70	Zinc finger protein JACKDAW
5b3h_F	2e-34	154	221	3	70	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	Prupe.1G341100.1.p

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	AM455095	1e-129	AM455095.1 Vitis vinifera contig VV78X055432.12, whole genome shotgun sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_007226470.1	0.0	protein indeterminate-domain 4, chloroplastic
Swissprot	Q8GYC1	1e-137	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	M5XP20	0.0	M5XP20_PRUPE; Uncharacterized protein
STRING	EMJ27669	0.0	(Prunus persica)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1536	33	97

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02070.1	1e-117	indeterminate(ID)-domain 5

Link Out ? help Back to Top
Phytozome	Prupe.1G341100.1.p
Entrez Gene	18788533

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]