PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

C2H2

Protein Properties

Length: 561aa MW: 60111.9 Da PI: 9.3045

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.008G168900.2	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.2	2.9e-05	72	94	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Gorai.008G168900.2 72 FICEVCNKGFQREQNLQLHRRGH 94 89*******************88 PP
2	zf-C2H2	13.2	0.00027	148	170	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Gorai.008G168900.2 148 WKCEKCSKRYAVQSDWKAHSKTC 170 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	6.2E-6	71	94	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.98E-7	71	94	No hit	No description
Pfam	PF12171	2.7E-5	72	94	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	10.99	72	94	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0052	72	94	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	74	94	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	113	143	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.0E-5	136	169	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.98E-7	143	168	No hit	No description
SMART	SM00355	130	148	168	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: 561 aa Download sequence Send to blast
MATASSSATF FGNSAENENP MIKQQSSAAP TSSTAPTTAP HSKKKRNQPG TPNPDVEVIA 60 LSPKSLMATN RFICEVCNKG FQREQNLQLH RRGHNLPWKL KQKSTKEVKK KVYLCPEPTC 120 VHHEPSRALG DLTGIKKHYS RKHGEKKWKC EKCSKRYAVQ SDWKAHSKTC GTREYRCDCG 180 TLFSRRDSFI THRAFCDALA QETARHPTNN LTPIGSHHIF GGNHHQMSLG LSQNQPLTSN 240 MLRLGSGTGV AKFEHLNSPP SNPSSLQNMP AFFMGDAANQ GFLPEHQSHH GNGPYINKPL 300 HGLMQLPDLQ GNTNSTAPNS ASLFNLGFFP SNSGASSIST GENGGASNSG FLSGNQFNMG 360 DVQVGSGMAS LYSSSSMQHE NISPNMSATA LLQKAAQMGS TTSNNTCSLL RGLGSSSSSG 420 VKSDRQVFAP NNFESGGSLR SQMENDSNLQ GLMNSLANGN SSIFGQDHSN FGGFTGNGMT 480 VEHHSNNANF SNVDEAKLHQ KLGVRIGESD KLTLDFLGVG EMVGNMGGNG QHGINIGSLN 540 PDVKSSAQAT SQQFGCPKLV *

Sequence ? help Back to Top

Protein Sequence Length: 561 aa Download sequence Send to blast

MATASSSATF FGNSAENENP MIKQQSSAAP TSSTAPTTAP HSKKKRNQPG TPNPDVEVIA  60
LSPKSLMATN RFICEVCNKG FQREQNLQLH RRGHNLPWKL KQKSTKEVKK KVYLCPEPTC  120
VHHEPSRALG DLTGIKKHYS RKHGEKKWKC EKCSKRYAVQ SDWKAHSKTC GTREYRCDCG  180
TLFSRRDSFI THRAFCDALA QETARHPTNN LTPIGSHHIF GGNHHQMSLG LSQNQPLTSN  240
MLRLGSGTGV AKFEHLNSPP SNPSSLQNMP AFFMGDAANQ GFLPEHQSHH GNGPYINKPL  300
HGLMQLPDLQ GNTNSTAPNS ASLFNLGFFP SNSGASSIST GENGGASNSG FLSGNQFNMG  360
DVQVGSGMAS LYSSSSMQHE NISPNMSATA LLQKAAQMGS TTSNNTCSLL RGLGSSSSSG  420
VKSDRQVFAP NNFESGGSLR SQMENDSNLQ GLMNSLANGN SSIFGQDHSN FGGFTGNGMT  480
VEHHSNNANF SNVDEAKLHQ KLGVRIGESD KLTLDFLGVG EMVGNMGGNG QHGINIGSLN  540
PDVKSSAQAT SQQFGCPKLV *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	4e-34	144	205	3	64	Zinc finger protein JACKDAW
5b3h_F	4e-34	144	205	3	64	Zinc finger protein JACKDAW
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Gra.2370	0.0	flower\|seedling\| flowering

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	48819943	0.0

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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00256	DAP	Transfer from AT2G02080	Download

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012438382.1	0.0	PREDICTED: protein indeterminate-domain 4, chloroplastic
Refseq	XP_012438383.1	0.0	PREDICTED: protein indeterminate-domain 4, chloroplastic
Refseq	XP_012438384.1	0.0	PREDICTED: protein indeterminate-domain 4, chloroplastic
Swissprot	Q8GYC1	1e-141	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	A0A0D2U4K4	0.0	A0A0D2U4K4_GOSRA; Uncharacterized protein
STRING	Gorai.008G168900.1	0.0	(Gossypium raimondii)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02080.1	1e-119	indeterminate(ID)-domain 4

Link Out ? help Back to Top
Phytozome	Gorai.008G168900.2
Entrez Gene	105764384

Publications ? help Back to Top
Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]