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

ORGLA08G0212300.1

Organism

Oryza glaberrima

Taxonomic ID

4538

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: 552aa MW: 57323.8 Da PI: 9.3848

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
ORGLA08G0212300.1	genome	AGI	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	71	93	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k F r nL+ H r H ORGLA08G0212300.1 71 FVCEVCNKGFQREQNLQLHRRGH 93 89*******************88 PP
2	zf-C2H2	13.2	0.00027	147	169	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H +t+ ORGLA08G0212300.1 147 WKCDKCNKRYAVQSDWKAHSKTC 169 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	7.6E-6	70	93	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	4.82E-8	70	93	No hit	No description
PROSITE profile	PS50157	11.094	71	93	IPR007087	Zinc finger, C2H2
Pfam	PF12171	3.6E-5	71	93	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.0041	71	93	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	73	93	IPR007087	Zinc finger, C2H2
SMART	SM00355	140	112	142	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.3E-5	135	168	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	4.82E-8	142	167	No hit	No description
SMART	SM00355	110	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: 552 aa Download sequence Send to blast
MAAASSAHYF GLGEPQMQQQ QQQQPPLQNN AAAPVAATPP PKKKRNQPGN PNPDAEVVAL 60 SPHTLLATNR FVCEVCNKGF QREQNLQLHR RGHNLPWKLK QKNPKETRRR VYLCPEPSCV 120 HHDPSRALGD LTGIKKHYSR KHGEKKWKCD KCNKRYAVQS DWKAHSKTCG TREYRCDCGT 180 LFSRRDSFIT HRAFCDALAQ ESGRIMPPMG AALYAAAGAG MAIGGLTGMA ASHQLQPFQD 240 HSSAITTAAN AAAQFDHLMA TSSAAAGSPA FRAAQPTSSS SSPFYLGGGG DDGQAHTSLL 300 HGKPAFHGLM QLPEQQGSNG GGLLNLSYFS GGNGGHHHHH QEGRLVFPDQ FNGVAAGNGA 360 RAGSGEHGNS GNNADSGSIF SGNMMGGGGG FSSLYSSSDQ TVPPQMSATA LLQKAAQMGA 420 TTSSGGAGSV NSLLRGLGSG GGGGALNGKP AGAAGFIMSG ESSSRSTASQ TAENESQLRE 480 LMMNTLSATG GSTGAGTVFV GGGFPGVDDG KLSTRDFLGV SGGAPGLQLR HGGAAGMGMA 540 GSLDQEMKWI NW

Sequence ? help Back to Top

Protein Sequence Length: 552 aa Download sequence Send to blast

MAAASSAHYF GLGEPQMQQQ QQQQPPLQNN AAAPVAATPP PKKKRNQPGN PNPDAEVVAL  60
SPHTLLATNR FVCEVCNKGF QREQNLQLHR RGHNLPWKLK QKNPKETRRR VYLCPEPSCV  120
HHDPSRALGD LTGIKKHYSR KHGEKKWKCD KCNKRYAVQS DWKAHSKTCG TREYRCDCGT  180
LFSRRDSFIT HRAFCDALAQ ESGRIMPPMG AALYAAAGAG MAIGGLTGMA ASHQLQPFQD  240
HSSAITTAAN AAAQFDHLMA TSSAAAGSPA FRAAQPTSSS SSPFYLGGGG DDGQAHTSLL  300
HGKPAFHGLM QLPEQQGSNG GGLLNLSYFS GGNGGHHHHH QEGRLVFPDQ FNGVAAGNGA  360
RAGSGEHGNS GNNADSGSIF SGNMMGGGGG FSSLYSSSDQ TVPPQMSATA LLQKAAQMGA  420
TTSSGGAGSV NSLLRGLGSG GGGGALNGKP AGAAGFIMSG ESSSRSTASQ TAENESQLRE  480
LMMNTLSATG GSTGAGTVFV GGGFPGVDDG KLSTRDFLGV SGGAPGLQLR HGGAAGMGMA  540
GSLDQEMKWI NW

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-33	143	205	3	65	Zinc finger protein JACKDAW
5b3h_F	2e-33	143	205	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	ORGLA08G0212300.1

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-120	IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBL	I1QL22	0.0	I1QL22_ORYGL; Uncharacterized protein
STRING	ORGLA08G0212300.1	0.0	(Oryza glaberrima)

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-109	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]