PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Cicereae; Cicer

Family

C2H2

Protein Properties

Length: 519aa MW: 57745.2 Da PI: 9.3082

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_004496222.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.4	2.6e-05	78	100	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H XP_004496222.1 78 FICEVCNKGFQREQNLQLHRRGH 100 89*******************88 PP
2	zf-C2H2	12.7	0.00039	154	176	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k + +s+ k H +t+ XP_004496222.1 154 WKCEKCSKKYAVQSDWKAHSKTC 176 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	5.7E-6	77	100	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.14E-7	77	100	No hit	No description
SMART	SM00355	0.0052	78	100	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.99	78	100	IPR007087	Zinc finger, C2H2
Pfam	PF12171	2.5E-5	78	100	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	80	100	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	119	149	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	3.9E-5	142	175	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.14E-7	149	174	No hit	No description
SMART	SM00355	140	154	174	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: 519 aa Download sequence Send to blast
MAAASSSTSF LGIREENQSQ ITNLHHLHHH QSITTSATSS APPTTIPPKK RRNQPGTPNP 60 DAEVIALSPK TLMATNRFIC EVCNKGFQRE QNLQLHRRGH NLPWKLKQKS NKEPKRKVYL 120 CPEPTCVHHD PSRALGDLTG IKKHYSRKHG EKKWKCEKCS KKYAVQSDWK AHSKTCGTRE 180 YRCDCGTLFS RRDSFITHRA FCDALAQESS RHPNPFGTHL YGTNTNHMSL GLSQVGSQIS 240 QLQNQNQTSN TNNNILRLGS TQPKFEPLIS HSSLIGHSIP SSPFFMTDIP NQSSFEEQQF 300 SNKQLHGLMQ LPDLQGNTNN SSNIFNLMNI HEHHQFNNNI NTSNQGTTLY NINNNPLISD 360 HQLFVNSMQQ QESPHMSATA LLQKAAQIGS TSTNNKGTSL LRGMCTTSST NNINDDNHNI 420 NATFGRSSSM EENEHHNNEL HGLINSFANG NTSIFGNVQG NDKLTLDFLG VGGMVRNMSG 480 GFSSQSEQHG INTTSVVSLN ADVKLPHSNQ RFGSSNMMQ

Sequence ? help Back to Top

Protein Sequence Length: 519 aa Download sequence Send to blast

MAAASSSTSF LGIREENQSQ ITNLHHLHHH QSITTSATSS APPTTIPPKK RRNQPGTPNP  60
DAEVIALSPK TLMATNRFIC EVCNKGFQRE QNLQLHRRGH NLPWKLKQKS NKEPKRKVYL  120
CPEPTCVHHD PSRALGDLTG IKKHYSRKHG EKKWKCEKCS KKYAVQSDWK AHSKTCGTRE  180
YRCDCGTLFS RRDSFITHRA FCDALAQESS RHPNPFGTHL YGTNTNHMSL GLSQVGSQIS  240
QLQNQNQTSN TNNNILRLGS TQPKFEPLIS HSSLIGHSIP SSPFFMTDIP NQSSFEEQQF  300
SNKQLHGLMQ LPDLQGNTNN SSNIFNLMNI HEHHQFNNNI NTSNQGTTLY NINNNPLISD  360
HQLFVNSMQQ QESPHMSATA LLQKAAQIGS TSTNNKGTSL LRGMCTTSST NNINDDNHNI  420
NATFGRSSSM EENEHHNNEL HGLINSFANG NTSIFGNVQG NDKLTLDFLG VGGMVRNMSG  480
GFSSQSEQHG INTTSVVSLN ADVKLPHSNQ RFGSSNMMQ

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	9e-35	150	211	3	64	Zinc finger protein JACKDAW
5b3h_F	9e-35	150	211	3	64	Zinc finger protein JACKDAW
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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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_004496222.1

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	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AP006423	1e-131	AP006423.1 Lotus japonicus genomic DNA, chromosome 5, clone: LjT23C14, TM0311, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004496222.1	0.0	protein indeterminate-domain 4, chloroplastic-like isoform X1
Refseq	XP_004496223.1	0.0	protein indeterminate-domain 4, chloroplastic-like isoform X1
Refseq	XP_027189666.1	0.0	protein indeterminate-domain 4, chloroplastic-like isoform X1
Swissprot	Q8GYC1	1e-142	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	A0A1S2XZ70	0.0	A0A1S2XZ70_CICAR; protein indeterminate-domain 4, chloroplastic-like isoform X1
STRING	XP_004496222.1	0.0	(Cicer arietinum)

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
AT2G02080.1	1e-104	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]