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

KHN43667.1

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: 474aa MW: 53199.4 Da PI: 8.8944

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
KHN43667.1	genome	TCUHK	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	18.5	5.6e-06	57	79	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 y+C++C++ F r nL+ H r+H KHN43667.1 57 YVCEICNQGFQRDQNLQMHRRRH 79 9*********************9 PP
2	zf-C2H2	14.4	0.00011	134	156	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k + +s++k H++t+ KHN43667.1 134 WVCERCSKGYAVQSDYKAHLKTC 156 58*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	3.83E-5	56	79	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.9E-5	56	79	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.97	57	79	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0052	57	79	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS01359	0	59	139	IPR019786	Zinc finger, PHD-type, conserved site
PROSITE pattern	PS00028	0	59	79	IPR007087	Zinc finger, C2H2
SMART	SM00355	190	98	128	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	7.0E-4	125	155	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.83E-5	129	154	No hit	No description
SMART	SM00355	100	134	161	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: 474 aa Download sequence Send to blast
MLANNLSPSS VPTSEPFPCT ENGTATNKRK RRPAGTPDPD AEVVSLSPKT LLESDRYVCE 60 ICNQGFQRDQ NLQMHRRRHK VPWKLLKRET PVVRKRVFVC PEPTCLHHDP CHALGDLVGI 120 KKHFRRKHSN HKQWVCERCS KGYAVQSDYK AHLKTCGTRG HSCDCGRVFS RVESFIEHQD 180 ACNMGRLRPE SQPLQPSACL SRTASSPSPS SETNFSTAPW PTRMIIPKPS EPPTIFMNNP 240 ITAITTAETS SKSNNKLLHP NLDLQLSTPT TTNNTSNVAN RIDAAISPKR DHHHHHENHS 300 THLQLSIGSS DMSEKNESNR NSSEKSSNSN INDQNNNNKQ SNNMALLRVQ EQAREHLRIA 360 MAEKAYAEEA RKQAKRQIEL AEQEFTNAKR IRQQAQAELD KAYSLKEHAM KQINSTMLQI 420 TCHGCKQQFQ ARNAATTPDE NSLVLSYVSS AITTEGGGEV ENDNNAKDHG KDNN

Sequence ? help Back to Top

Protein Sequence Length: 474 aa Download sequence Send to blast

MLANNLSPSS VPTSEPFPCT ENGTATNKRK RRPAGTPDPD AEVVSLSPKT LLESDRYVCE  60
ICNQGFQRDQ NLQMHRRRHK VPWKLLKRET PVVRKRVFVC PEPTCLHHDP CHALGDLVGI  120
KKHFRRKHSN HKQWVCERCS KGYAVQSDYK AHLKTCGTRG HSCDCGRVFS RVESFIEHQD  180
ACNMGRLRPE SQPLQPSACL SRTASSPSPS SETNFSTAPW PTRMIIPKPS EPPTIFMNNP  240
ITAITTAETS SKSNNKLLHP NLDLQLSTPT TTNNTSNVAN RIDAAISPKR DHHHHHENHS  300
THLQLSIGSS DMSEKNESNR NSSEKSSNSN INDQNNNNKQ SNNMALLRVQ EQAREHLRIA  360
MAEKAYAEEA RKQAKRQIEL AEQEFTNAKR IRQQAQAELD KAYSLKEHAM KQINSTMLQI  420
TCHGCKQQFQ ARNAATTPDE NSLVLSYVSS AITTEGGGEV ENDNNAKDHG KDNN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	6e-18	132	183	5	56	Zinc finger protein JACKDAW
5b3h_F	6e-18	132	183	5	56	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor involved in inflorescence stems gravitropism, probably by regulating starch accumulation in amyloplasts of graviperceptive cells. Required for stem circumnutation movements. Regulates lateral organ morphogenesis and gravitropic responses (PubMed:24039602). Acts cooperatively with IDD16 to control silique and branche orientation (PubMed:24039602). Involved in the establishment of auxin gradients through the regulation of auxin biosynthesis and transport (PubMed:24039602). {ECO:0000269\|PubMed:16813575, ECO:0000269\|PubMed:18259878, ECO:0000269\|PubMed:24039602, ECO:0000269\|PubMed:9210330}.
UniProt	Transcription factor regulating starch metabolism by binding directly to the promoter of QQS (PubMed:21556057). The IDD14beta isoform attenuates the transcription factor activity by competitively forming heterodimers with reduced DNA-binding capacity(PubMed:21556057). Regulates lateral organ morphogenesis and gravitropic responses (PubMed:24039602). Has a redundant role with IDD16 in directing leaf and floral organ morphogenesis (PubMed:24039602). Involved in the establishment of auxin gradients through the regulation of auxin biosynthesis and transport (PubMed:24039602). {ECO:0000269\|PubMed:21556057, ECO:0000269\|PubMed:24039602}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	KHN43667.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Not regulated by auxin. {ECO:0000269\|PubMed:24039602}.
UniProt	INDUCTION: Not regulated by auxin. {ECO:0000269\|PubMed:24039602}.

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	AP015044	1e-178	AP015044.1 Vigna angularis var. angularis DNA, chromosome 11, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_003534121.1	0.0	protein SHOOT GRAVITROPISM 5
Refseq	XP_028181772.1	0.0	zinc finger protein SHOOT GRAVITROPISM 5-like
Swissprot	F4IPE3	1e-142	IDD15_ARATH; Zinc finger protein SHOOT GRAVITROPISM 5
Swissprot	Q9C9X7	1e-142	IDD14_ARATH; Protein indeterminate-domain 14
TrEMBL	A0A0B2SH63	0.0	A0A0B2SH63_GLYSO; Protein indeterminate-domain 14
TrEMBL	I1L402	0.0	I1L402_SOYBN; Uncharacterized protein
STRING	GLYMA09G30030.1	0.0	(Glycine max)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1769	32	89

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G68130.1	1e-136	indeterminate(ID)-domain 14

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] 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] Arendsee ZW,Li L,Wurtele ES Coming of age: orphan genes in plants. Trends Plant Sci., 2014. 19(11): p. 698-708 [PMID:25151064] Kim JY,Ryu JY,Baek K,Park CM High temperature attenuates the gravitropism of inflorescence stems by inducing SHOOT GRAVITROPISM 5 alternative splicing in Arabidopsis. New Phytol., 2016. 209(1): p. 265-79 [PMID:26256266] Ryu JY,Kim JY,Park CM Adaptive thermal control of stem gravitropism through alternative RNA splicing in Arabidopsis. Plant Signal Behav, 2015. 10(11): p. e1093715 [PMID:26452406] Qu Y, et al. Peroxisomal CuAOζ and its product H2O2 regulate the distribution of auxin and IBA-dependent lateral root development in Arabidopsis. J. Exp. Bot., 2017. 68(17): p. 4851-4867 [PMID:28992128] Shi H, et al. Zinc finger of Arabidopsis thaliana 6 is involved in melatonin-mediated auxin signaling through interacting INDETERMINATE DOMAIN15 and INDOLE-3-ACETIC ACID 17. J. Pineal Res., 2018. 65(2): p. e12494 [PMID:29607541]