PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus

Family

C2H2

Protein Properties

Length: 541aa MW: 58443 Da PI: 9.7701

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.008G142500.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.3	2.7e-05	71	93	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Potri.008G142500.1 71 FICEVCNKGFQREQNLQLHRRGH 93 89*******************88 PP
2	zf-C2H2	13.3	0.00026	147	169	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Potri.008G142500.1 147 WKCEKCSKRYAVQSDWKAHSKTC 169 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	2.48E-7	70	93	No hit	No description
Gene3D	G3DSA:3.30.160.60	5.9E-6	70	93	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.99	71	93	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0052	71	93	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	2.6E-5	71	93	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	73	93	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	112	142	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.9E-5	135	168	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.48E-7	142	167	No hit	No description
SMART	SM00355	130	147	167	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: 541 aa Download sequence Send to blast
MAAASSSATF FGRAREENEN QMIQQRSSTT TSSTVPTTEP PKKRRNQPGT PNPDAEVIAL 60 SPKTLMATNR FICEVCNKGF QREQNLQLHR RGHNLPWKLK QKTTKEVRRK VYLCPEPTCV 120 HHDPSRALGD LTGIKKHYSR KHGEKKWKCE KCSKRYAVQS DWKAHSKTCG TREYRCDCGT 180 LFSRRDSFIT HRAFCDALAQ ESARHPTSLN TIGTNLYGNN HMSLGLSQVG SQISQLQVHH 240 PSANNMLRLG NAGAAKFEHL IPPPNPSSIP MMHSSGFFMG DANQGPFPNK SLQGLMQLPD 300 LQSNTNNSSA SNLFNLGFFP NNSNASRVSS NENANTGSTS LVNSGFLNAN LFSNVNGADQ 360 GTTLFSSNMG GDHVGSGTMS SLFNTSMQNI SPYMSATALL QKAAQMGSTT SSNSPTSLLK 420 GLGSSSTTGA KSVRPHVSTN FGSSFGNPTV GESLETQMES ESQFQGLMNS LANGSSSIFG 480 NEQDNSYTGF NSSNFSKVGE EKLHQSLAGS DKLTLDFLGV GGRVRNVGGG FPQGDQHSMQ 540 *

Sequence ? help Back to Top

Protein Sequence Length: 541 aa Download sequence Send to blast

MAAASSSATF FGRAREENEN QMIQQRSSTT TSSTVPTTEP PKKRRNQPGT PNPDAEVIAL  60
SPKTLMATNR FICEVCNKGF QREQNLQLHR RGHNLPWKLK QKTTKEVRRK VYLCPEPTCV  120
HHDPSRALGD LTGIKKHYSR KHGEKKWKCE KCSKRYAVQS DWKAHSKTCG TREYRCDCGT  180
LFSRRDSFIT HRAFCDALAQ ESARHPTSLN TIGTNLYGNN HMSLGLSQVG SQISQLQVHH  240
PSANNMLRLG NAGAAKFEHL IPPPNPSSIP MMHSSGFFMG DANQGPFPNK SLQGLMQLPD  300
LQSNTNNSSA SNLFNLGFFP NNSNASRVSS NENANTGSTS LVNSGFLNAN LFSNVNGADQ  360
GTTLFSSNMG GDHVGSGTMS SLFNTSMQNI SPYMSATALL QKAAQMGSTT SSNSPTSLLK  420
GLGSSSTTGA KSVRPHVSTN FGSSFGNPTV GESLETQMES ESQFQGLMNS LANGSSSIFG  480
NEQDNSYTGF NSSNFSKVGE EKLHQSLAGS DKLTLDFLGV GGRVRNVGGG FPQGDQHSMQ  540
*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-34	143	204	3	64	Zinc finger protein JACKDAW
5b3h_F	2e-34	143	204	3	64	Zinc finger protein JACKDAW
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Highly expressed in leaf tissues. {ECO:0000305\|PubMed:22898356}.

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Potri.008G142500.1

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	AC208494	0.0	AC208494.1 Populus trichocarpa clone JGIACSB265-L05, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006379805.2	0.0	protein indeterminate-domain 5, chloroplastic
Swissprot	Q9ZUL3	1e-137	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A2K1ZH37	0.0	A0A2K1ZH37_POPTR; Uncharacterized protein
STRING	POPTR_0008s14190.1	0.0	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1536	33	97
Representative plant	OGRP95	16	242

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02070.1	1e-137	indeterminate(ID)-domain 5

Link Out ? help Back to Top
Phytozome	Potri.008G142500.1
Entrez Gene	18101539

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]