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

KHM98899.1

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: 533aa MW: 59012 Da PI: 8.8081

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
KHM98899.1	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	73	93	3	23
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C+ C+k F r nL+ H r H KHM98899.1 73 CEVCNKGFQREQNLQLHRRGH 93 *******************88 PP
2	zf-C2H2	12	0.00063	147	169	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H +t+ KHM98899.1 147 WKCDKCSKKYAVQSDWKAHSKTC 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	1.0E-5	70	93	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.97	71	93	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.025	71	93	IPR015880	Zinc finger, C2H2-like
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	5.9E-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	150	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: 533 aa Download sequence Send to blast
MAAPFSAASL FAIREEDQNQ MKQQQHSSTP SSSTTPAAPP QKKRRNQPGT PYPDAEVIAL 60 SPKTLMATNR FLCEVCNKGF QREQNLQLHR RGHNLPWKLK QKTNKEPKRK VYLCPEPTCV 120 HHDPSRALGD LTGIKKHYSR KHGEKKWKCD KCSKKYAVQS DWKAHSKTCG TREYRCDCGT 180 LFSRRDSFIT HRAFCDALAQ ESARDQPPNL SSAISNQLYG NSNNISLGLS QMGPQIPSIH 240 DQNHQSSDLL HFGGAPRTGQ FDHILPPNIA SSSPFRPSMQ TPPFFMQEPN QTYHDSNKPF 300 QGLIQLSDLN NNNAPSGSNF FNLPFLSNRA NKNNNYSEEQ QQFNTAEESN FFSESTMNIG 360 TDHQANSTTT APSLFSTNSL QNTNISHMSA TALLQKAAQM GSTSSSNHNI INNNTTNNNP 420 SASSILRSLA SKSDQRQLGG GAGNYATIFN NSVQEMMDIS GFEAYDHHGG MNKEQKLGVG 480 GSDRLTRDFL GVAQQQQQQQ REGFNLVSSL ESETNNNNAA PSGQSFGSDG NFQ

Sequence ? help Back to Top

Protein Sequence Length: 533 aa Download sequence Send to blast

MAAPFSAASL FAIREEDQNQ MKQQQHSSTP SSSTTPAAPP QKKRRNQPGT PYPDAEVIAL  60
SPKTLMATNR FLCEVCNKGF QREQNLQLHR RGHNLPWKLK QKTNKEPKRK VYLCPEPTCV  120
HHDPSRALGD LTGIKKHYSR KHGEKKWKCD KCSKKYAVQS DWKAHSKTCG TREYRCDCGT  180
LFSRRDSFIT HRAFCDALAQ ESARDQPPNL SSAISNQLYG NSNNISLGLS QMGPQIPSIH  240
DQNHQSSDLL HFGGAPRTGQ FDHILPPNIA SSSPFRPSMQ TPPFFMQEPN QTYHDSNKPF  300
QGLIQLSDLN NNNAPSGSNF FNLPFLSNRA NKNNNYSEEQ QQFNTAEESN FFSESTMNIG  360
TDHQANSTTT APSLFSTNSL QNTNISHMSA TALLQKAAQM GSTSSSNHNI INNNTTNNNP  420
SASSILRSLA SKSDQRQLGG GAGNYATIFN NSVQEMMDIS GFEAYDHHGG MNKEQKLGVG  480
GSDRLTRDFL GVAQQQQQQQ REGFNLVSSL ESETNNNNAA PSGQSFGSDG NFQ

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	4e-34	143	204	3	64	Zinc finger protein JACKDAW
5b3h_F	4e-34	143	204	3	64	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	KHM98899.1

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	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AP015043	1e-157	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_003530314.1	0.0	protein indeterminate-domain 5, chloroplastic
Refseq	XP_028240589.1	0.0	protein indeterminate-domain 5, chloroplastic-like
Swissprot	Q8GYC1	1e-129	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	A0A0B2NPE2	0.0	A0A0B2NPE2_GLYSO; Protein indeterminate-domain 4, chloroplastic
TrEMBL	K7L204	0.0	K7L204_SOYBN; Uncharacterized protein
STRING	GLYMA07G19540.2	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
AT2G02080.1	1e-113	indeterminate(ID)-domain 4

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]