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

KHM99036.1

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: 526aa MW: 57829 Da PI: 9.2147

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
KHM99036.1	genome	TCUHK	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.4	2.7e-05	71	93	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H KHM99036.1 71 FICEVCNKGFQREQNLQLHRRGH 93 89*******************88 PP
2	zf-C2H2	12	0.00062	147	169	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H +t+ KHM99036.1 147 WKCDKCSKKYAVQSDWKAHSKTC 169 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.6E-7	70	93	No hit	No description
Gene3D	G3DSA:3.30.160.60	5.8E-6	70	93	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.99	71	93	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0052	71	93	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	2.5E-5	71	93	IPR022755	Zinc finger, double-stranded RNA binding
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	5.8E-5	135	168	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.6E-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: 526 aa Download sequence Send to blast
MAAPFSAASL FAIREEDQNQ MKQQHSSTPS SSTTPAAPPP QKKRRNQPGT PYPDAEVIAL 60 SPKTLMATNR FICEVCNKGF QREQNLQLHR RGHNLPWKLK QKTNKEPKRK VYLCPEPTCV 120 HHDPSRALGD LTGIKKHYSR KHGEKKWKCD KCSKKYAVQS DWKAHSKTCG TREYRCDCGT 180 LFSRRDSFIT HRAFCDALAQ ESAREAPNLS SAIGNQLYGN SNNMSLGLSQ IPSIHDQNPQ 240 PSELMRFSGA PRAGQFDHIL PPNIASSSPF RHSMQTPPFF LQESNQTYHD SNKPFQGLIQ 300 LSDLNNNNPS ASNLFNLPFL SNRAINSNNY SEEQQFNTAE GSNFFSEGTM NIGSTDHQTS 360 STTVPSLFST NSLQNNHLSH MSATALLQKA SQIGSASSSN SININNTTTT NNTSASSLLR 420 SLASKSDHQR QLGGGGAAAN YATIFNNSVQ EMMNISGFEA YDHHGGMNKE QKLGGVGGSD 480 RLTRDFLGVA QQQQREGFNL MSSLEAETNN NAAPSGQSFG SGGNFQ

Sequence ? help Back to Top

Protein Sequence Length: 526 aa Download sequence Send to blast

MAAPFSAASL FAIREEDQNQ MKQQHSSTPS SSTTPAAPPP QKKRRNQPGT PYPDAEVIAL  60
SPKTLMATNR FICEVCNKGF QREQNLQLHR RGHNLPWKLK QKTNKEPKRK VYLCPEPTCV  120
HHDPSRALGD LTGIKKHYSR KHGEKKWKCD KCSKKYAVQS DWKAHSKTCG TREYRCDCGT  180
LFSRRDSFIT HRAFCDALAQ ESAREAPNLS SAIGNQLYGN SNNMSLGLSQ IPSIHDQNPQ  240
PSELMRFSGA PRAGQFDHIL PPNIASSSPF RHSMQTPPFF LQESNQTYHD SNKPFQGLIQ  300
LSDLNNNNPS ASNLFNLPFL SNRAINSNNY SEEQQFNTAE GSNFFSEGTM NIGSTDHQTS  360
STTVPSLFST NSLQNNHLSH MSATALLQKA SQIGSASSSN SININNTTTT NNTSASSLLR  420
SLASKSDHQR QLGGGGAAAN YATIFNNSVQ EMMNISGFEA YDHHGGMNKE QKLGGVGGSD  480
RLTRDFLGVA QQQQREGFNL MSSLEAETNN NAAPSGQSFG SGGNFQ

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-35	143	204	3	64	Zinc finger protein JACKDAW
5b3h_F	1e-35	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	KHM99036.1

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-172	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_028221481.1	0.0	protein indeterminate-domain 5, chloroplastic-like
Swissprot	Q8GYC1	1e-127	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	A0A0B2NU52	0.0	A0A0B2NU52_GLYSO; Protein indeterminate-domain 4, chloroplastic isoform A
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-111	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]