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

OMERI08G18050.1

Organism

Oryza meridionalis

Taxonomic ID

40149

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

C2H2

Protein Properties

Length: 554aa MW: 57169.6 Da PI: 9.5081

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OMERI08G18050.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.3	1.3e-05	74	96	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k F r nL+ H r H OMERI08G18050.1 74 FVCEVCNKGFQREQNLQLHRRGH 96 89*******************88 PP
2	zf-C2H2	13.2	0.00027	150	172	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H +t+ OMERI08G18050.1 150 WKCDKCNKRYAVQSDWKAHSKTC 172 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	4.82E-8	73	96	No hit	No description
Gene3D	G3DSA:3.30.160.60	7.6E-6	73	96	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.0041	74	96	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.094	74	96	IPR007087	Zinc finger, C2H2
Pfam	PF12171	3.6E-5	74	96	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	76	96	IPR007087	Zinc finger, C2H2
SMART	SM00355	140	115	145	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.3E-5	138	171	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	4.82E-8	145	170	No hit	No description
SMART	SM00355	110	150	170	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: 554 aa Download sequence Send to blast
MAAASSAHYF GLGEPQMQQQ QQPPLQNNAA APVAAAATPP PKKKRNQPGN PSKSNPDAEV 60 VALSPHTLLA TNRFVCEVCN KGFQREQNLQ LHRRGHNLPW KLKQKNPKET RRRVYLCPEP 120 SCVHHDPSRA LGDLTGIKKH YSRKHGEKKW KCDKCNKRYA VQSDWKAHSK TCGTREYRCD 180 CGTLFSRRDS FITHRAFCDA LAQESGRIMP PMGAALYAAA GAGMAIGGLT GMSASHQLQP 240 FQDHSSAITT AANAAAQFDH LMATSSAAAG SPAFRAAQPT SSSSSPFYLG GGADDGQAHT 300 SLLHGKPAFH GLMQLPEQQG SNGGGLLNLS YFSGGNGGHH HHHQEGRLVF PDQFNGVAAG 360 NGTRAGSGEH GNSGNNADSG SIFSGNMMGG GGGGGGFSSL YSSSDQTVPP PQMSATALLQ 420 KAAQMGATTS SGGAGSVNSL LRGLGSGGSG GALNGKPAGA AGFIMSGESS SRSTASQTAE 480 NESQLRELMM NTLSATGGGT VFVGGGGGSF PGVDDGKLST RDFLGVSGAA PGLQLRHGGA 540 AGMGMAGSLD QEMK

Sequence ? help Back to Top

Protein Sequence Length: 554 aa Download sequence Send to blast

MAAASSAHYF GLGEPQMQQQ QQPPLQNNAA APVAAAATPP PKKKRNQPGN PSKSNPDAEV  60
VALSPHTLLA TNRFVCEVCN KGFQREQNLQ LHRRGHNLPW KLKQKNPKET RRRVYLCPEP  120
SCVHHDPSRA LGDLTGIKKH YSRKHGEKKW KCDKCNKRYA VQSDWKAHSK TCGTREYRCD  180
CGTLFSRRDS FITHRAFCDA LAQESGRIMP PMGAALYAAA GAGMAIGGLT GMSASHQLQP  240
FQDHSSAITT AANAAAQFDH LMATSSAAAG SPAFRAAQPT SSSSSPFYLG GGADDGQAHT  300
SLLHGKPAFH GLMQLPEQQG SNGGGLLNLS YFSGGNGGHH HHHQEGRLVF PDQFNGVAAG  360
NGTRAGSGEH GNSGNNADSG SIFSGNMMGG GGGGGGFSSL YSSSDQTVPP PQMSATALLQ  420
KAAQMGATTS SGGAGSVNSL LRGLGSGGSG GALNGKPAGA AGFIMSGESS SRSTASQTAE  480
NESQLRELMM NTLSATGGGT VFVGGGGGSF PGVDDGKLST RDFLGVSGAA PGLQLRHGGA  540
AGMGMAGSLD QEMK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-33	146	208	3	65	Zinc finger protein JACKDAW
5b3h_F	2e-33	146	208	3	65	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor acting as a positive regulator of the starch synthase SS4. Controls chloroplast development and starch granule formation (PubMed:22898356). 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:22898356, ECO:0000269\|PubMed:24821766}.

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	AK072128	0.0	AK072128.1 Oryza sativa Japonica Group cDNA clone:J013124C13, full insert sequence.
GenBank	AK099830	0.0	AK099830.1 Oryza sativa Japonica Group cDNA clone:J013105K20, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015650033.1	0.0	protein indeterminate-domain 6, chloroplastic
Refseq	XP_025883278.1	0.0	protein indeterminate-domain 6, chloroplastic
Refseq	XP_025883279.1	0.0	protein indeterminate-domain 6, chloroplastic
Refseq	XP_025883280.1	0.0	protein indeterminate-domain 6, chloroplastic
Refseq	XP_025883281.1	0.0	protein indeterminate-domain 6, chloroplastic
Swissprot	Q9ZUL3	1e-117	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A0E0ENW5	0.0	A0A0E0ENW5_9ORYZ; Uncharacterized protein
STRING	OMERI08G17860.1	0.0	(Oryza meridionalis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP202	38	320

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G14580.2	1e-108	C2H2-like zinc finger protein

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]