PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

KHN12543.1

Organism

Glycine soja

Taxonomic ID

3848

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 543aa MW: 59545.9 Da PI: 9.4974

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
KHN12543.1	genome	TCUHK	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	14.2	0.00013	77	97	3	23
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C+ C+k F r nL+ H r H KHN12543.1 77 CEVCNKGFQREQNLQLHRRGH 97 *******************88 PP
2	zf-C2H2	12	0.00065	151	173	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H +t+ KHN12543.1 151 WKCDKCSKKYAVQSDWKAHSKTC 173 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	1.0E-5	74	97	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.34E-7	74	97	No hit	No description
SMART	SM00355	0.025	75	97	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.97	75	97	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	77	97	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	116	146	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	6.0E-5	139	172	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.34E-7	146	171	No hit	No description
SMART	SM00355	150	151	171	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: 543 aa Download sequence Send to blast
MASASSSTPF LGIRQENQSQ FTQQHQSSTT AASSTTTTTP TTVPQKKRRN QPGTPYPDAE 60 VIALSPKTLM ATNRFLCEVC NKGFQREQNL QLHRRGHNLP WKLKQKTNKE PKRKVYLCPE 120 PTCVHHDPSR ALGDLTGIKK HYSRKHGEKK WKCDKCSKKY AVQSDWKAHS KTCGTREYRC 180 DCGTLFSRRD SFITHRAFCD ALAHESARHP SSVNHLGTHH LYGTNHMSLG LGAQLQNHQI 240 SATNSILSLG SEPKFEHLIS PNLHHSSSSS FGVQSPQSSS FFMTDPNHAF QDLQSQNQGH 300 LFSNKQLHGL MQLPDLQGNT NNNSTTSASS LSASANNTNL FNLSFFPNTN TSGSIINDQF 360 SNISGGNNNQ GTATLYSTNS PVSNNHVGNS SLSSLFGNSS VQQDNMSPHM SATALLQKAA 420 QMSSTTTTNN ELGMRSSIEN EHSSHLRGLL NSLANGNNLG QYHNVVEEPK KMSQNNLGLC 480 FGGSDKLTLD FLGVGGMVRN MNNGGGFSQR EQQQQHSMGI TMSPLDPKLE SAQANQHYGT 540 STL

Sequence ? help Back to Top

Protein Sequence Length: 543 aa Download sequence Send to blast

MASASSSTPF LGIRQENQSQ FTQQHQSSTT AASSTTTTTP TTVPQKKRRN QPGTPYPDAE  60
VIALSPKTLM ATNRFLCEVC NKGFQREQNL QLHRRGHNLP WKLKQKTNKE PKRKVYLCPE  120
PTCVHHDPSR ALGDLTGIKK HYSRKHGEKK WKCDKCSKKY AVQSDWKAHS KTCGTREYRC  180
DCGTLFSRRD SFITHRAFCD ALAHESARHP SSVNHLGTHH LYGTNHMSLG LGAQLQNHQI  240
SATNSILSLG SEPKFEHLIS PNLHHSSSSS FGVQSPQSSS FFMTDPNHAF QDLQSQNQGH  300
LFSNKQLHGL MQLPDLQGNT NNNSTTSASS LSASANNTNL FNLSFFPNTN TSGSIINDQF  360
SNISGGNNNQ GTATLYSTNS PVSNNHVGNS SLSSLFGNSS VQQDNMSPHM SATALLQKAA  420
QMSSTTTTNN ELGMRSSIEN EHSSHLRGLL NSLANGNNLG QYHNVVEEPK KMSQNNLGLC  480
FGGSDKLTLD FLGVGGMVRN MNNGGGFSQR EQQQQHSMGI TMSPLDPKLE SAQANQHYGT  540
STL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	4e-34	147	215	3	71	Zinc finger protein JACKDAW
5b3h_F	4e-34	147	215	3	71	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}.

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	KHN12543.1

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006583684.1	0.0	protein indeterminate-domain 5, chloroplastic
Refseq	XP_006583685.1	0.0	protein indeterminate-domain 5, chloroplastic
Refseq	XP_028240554.1	0.0	protein indeterminate-domain 5, chloroplastic-like
Refseq	XP_028240555.1	0.0	protein indeterminate-domain 5, chloroplastic-like
Swissprot	Q8GYC1	1e-135	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	A0A0B2PXR7	0.0	A0A0B2PXR7_GLYSO; Protein indeterminate-domain 4, chloroplastic isoform A
TrEMBL	K7L200	0.0	K7L200_SOYBN; Uncharacterized protein
STRING	GLYMA07G19470.2	0.0	(Glycine max)

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-103	indeterminate(ID)-domain 5

Publications ? help Back to Top
Qi X, et al. Identification of a novel salt tolerance gene in wild soybean by whole-genome sequencing. Nat Commun, 2014. 5: p. 4340 [PMID:25004933] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]