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

OMERI04G12090.1

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

C3H

Protein Properties

Length: 352aa MW: 39451.9 Da PI: 9.9441

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OMERI04G12090.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	20.1	1.2e-06	282	305	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 y+ e Cr++++ C++ ++C+FaH+ OMERI04G12090.1 282 YGVEVCRDYLK-NMCNR-ESCRFAHP 305 899******.*.*****9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	0.037	104	131	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.183	104	132	IPR000571	Zinc finger, CCCH-type
Pfam	PF14608	0.1	110	130	No hit	No description
SMART	SM00356	0.21	139	165	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	11.836	139	166	IPR000571	Zinc finger, CCCH-type
Pfam	PF14608	3.6	151	164	No hit	No description
Gene3D	G3DSA:4.10.1000.10	6.0E-4	280	304	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	4.7E-4	281	306	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.338	281	307	IPR000571	Zinc finger, CCCH-type
Pfam	PF14608	0.013	287	305	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 352 aa Download sequence Send to blast
MASAETPNPD AEIPNTEAAA ADPAAAAATT TDPAAAGSPS PPLPPRKRRL SPTPSPTRRS 60 SRSRSPRRGR SRSRSRSRSR SRSRSRGRST SPRYPDGKRR RHNDLNVEVC RDFLRDRCAR 120 ADIECKYAHP HPTVAVDRDS KVTACADSLR NNCFRGRTCR YYHPPPHIQE SLLRSIGVED 180 PKVKMLIGKV VYLLQTRKKR FAEILRVDDV QDQQTSADSC TIHPLRIVQL YSHVMAHPMP 240 PPMRDIPMQY PDMVYMPPPA PLGVPMMMPP PSAPAAFSGN NYGVEVCRDY LKNMCNRESC 300 RFAHPDLNNE FAVILSEENA IDLPVAFTIH LQAQILLDKS QVGFNQYPTT SY

Sequence ? help Back to Top

Protein Sequence Length: 352 aa Download sequence Send to blast

MASAETPNPD AEIPNTEAAA ADPAAAAATT TDPAAAGSPS PPLPPRKRRL SPTPSPTRRS  60
SRSRSPRRGR SRSRSRSRSR SRSRSRGRST SPRYPDGKRR RHNDLNVEVC RDFLRDRCAR  120
ADIECKYAHP HPTVAVDRDS KVTACADSLR NNCFRGRTCR YYHPPPHIQE SLLRSIGVED  180
PKVKMLIGKV VYLLQTRKKR FAEILRVDDV QDQQTSADSC TIHPLRIVQL YSHVMAHPMP  240
PPMRDIPMQY PDMVYMPPPA PLGVPMMMPP PSAPAAFSGN NYGVEVCRDY LKNMCNRESC  300
RFAHPDLNNE FAVILSEENA IDLPVAFTIH LQAQILLDKS QVGFNQYPTT SY

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5u6h_A	5e-15	105	172	14	79	Muscleblind-like protein 1
5u9b_A	5e-15	105	172	14	79	Muscleblind-like protein 1
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	77	87	RSRSRSRSRGR
2	79	87	RSRSRSRGR

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK060634	0.0	AK060634.1 Oryza sativa Japonica Group cDNA clone:001-027-B10, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015636418.1	1e-119	zinc finger CCCH domain-containing protein 28 isoform X2
Swissprot	Q0JD07	1e-119	C3H28_ORYSJ; Zinc finger CCCH domain-containing protein 28
TrEMBL	A0A0E0DEL0	0.0	A0A0E0DEL0_9ORYZ; Uncharacterized protein
STRING	OMERI04G11120.1	1e-158	(Oryza meridionalis)

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764]