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; Phaseoleae; Vigna

Family

C2H2

Protein Properties

Length: 558aa MW: 60592.4 Da PI: 9.6621

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Vradi11g11070.1	genome	SNU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.3	2.9e-05	80	102	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Vradi11g11070.1 80 FICEVCNKGFQREQNLQLHRRGH 102 89*******************88 PP
2	zf-C2H2	11.9	0.00067	156	178	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H +t+ Vradi11g11070.1 156 WKCDKCSKKYAVQSDWKAHSKTC 178 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.5E-7	79	102	No hit	No description
Gene3D	G3DSA:3.30.160.60	6.2E-6	79	102	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.99	80	102	IPR007087	Zinc finger, C2H2
Pfam	PF12171	2.7E-5	80	102	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.0052	80	102	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	82	102	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	121	151	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	6.2E-5	144	177	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.5E-7	151	176	No hit	No description
SMART	SM00355	150	156	176	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: 558 aa Download sequence Send to blast
MTSGSSSTPF LGVRQQNQTQ LSQQHQSSTA ASSSTTTTTS TTTTPSTMPQ KKRRNQPGTP 60 YPDAEVIALS PKTLMATNRF ICEVCNKGFQ REQNLQLHRR GHNLPWKLKQ KSNKEPKRKV 120 YLCPEPTCVH HDPSRALGDL TGIKKHYSRK HGEKKWKCDK CSKKYAVQSD WKAHSKTCGT 180 REYRCDCGTL FSRRDSFITH RAFCDALAHE SARHPSNLNP LGAHHLYGTN HMSLGLGAQL 240 QNQAASANSL LSLGTAQKFE HLISPNLHHS SSFGVQSPPH SSFFMTDPNQ AFQDLQSHQQ 300 GPLFSTKQLH GLMQLPDLQG TTNNNSTSAS SLSASANNAN LFNLSFFPNT NTSGSIINDQ 360 FSNISGGNDQ GTTTFYSSSS PVSNQVGSGL SSLFGNSSLQ QDSMSPHMSA TALLQKAAQM 420 GSTTTTNGPC SLLRGTEELG IRSRMESEHS NHLRGLMNSF ANGNASMFGN VKGNENNLGQ 480 FHSVSEEPKK MSQNLGLCFG GSDKLTLDFL GVGGMVRNMN SGGFSQREQQ HSMGTMSPLD 540 PKLESAQGNQ HFGASTL*

Sequence ? help Back to Top

Protein Sequence Length: 558 aa Download sequence Send to blast

MTSGSSSTPF LGVRQQNQTQ LSQQHQSSTA ASSSTTTTTS TTTTPSTMPQ KKRRNQPGTP  60
YPDAEVIALS PKTLMATNRF ICEVCNKGFQ REQNLQLHRR GHNLPWKLKQ KSNKEPKRKV  120
YLCPEPTCVH HDPSRALGDL TGIKKHYSRK HGEKKWKCDK CSKKYAVQSD WKAHSKTCGT  180
REYRCDCGTL FSRRDSFITH RAFCDALAHE SARHPSNLNP LGAHHLYGTN HMSLGLGAQL  240
QNQAASANSL LSLGTAQKFE HLISPNLHHS SSFGVQSPPH SSFFMTDPNQ AFQDLQSHQQ  300
GPLFSTKQLH GLMQLPDLQG TTNNNSTSAS SLSASANNAN LFNLSFFPNT NTSGSIINDQ  360
FSNISGGNDQ GTTTFYSSSS PVSNQVGSGL SSLFGNSSLQ QDSMSPHMSA TALLQKAAQM  420
GSTTTTNGPC SLLRGTEELG IRSRMESEHS NHLRGLMNSF ANGNASMFGN VKGNENNLGQ  480
FHSVSEEPKK MSQNLGLCFG GSDKLTLDFL GVGGMVRNMN SGGFSQREQQ HSMGTMSPLD  540
PKLESAQGNQ HFGASTL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	3e-35	152	216	3	67	Zinc finger protein JACKDAW
5b3h_F	3e-35	152	216	3	67	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	Vradi11g11070.1

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	AP015043	0.0	AP015043.1 Vigna angularis var. angularis DNA, chromosome 10, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_014521036.1	0.0	protein indeterminate-domain 5, chloroplastic-like
Swissprot	Q8GYC1	1e-132	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	A0A1S3VRM2	0.0	A0A1S3VRM2_VIGRR; protein indeterminate-domain 5, chloroplastic-like
STRING	XP_007153117.1	0.0	(Phaseolus vulgaris)

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-105	indeterminate(ID)-domain 5

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]