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

OB02G21780.1

Common Name

LOC102710179

Organism

Oryza brachyantha

Taxonomic ID

4533

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: 333aa MW: 36404 Da PI: 7.1877

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OB02G21780.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	38.1	2.5e-12	193	218	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 y +C+++ +tG+C yGd+CkF+H+ OB02G21780.1 193 YQPDICKDYKETGYCGYGDSCKFMHD 218 67789********************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF90229	1.96E-9	191	223	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.1E-7	192	219	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.878	192	220	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.7E-12	193	223	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.6E-10	193	218	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:3.30.40.10	9.9E-14	261	313	IPR013083	Zinc finger, RING/FYVE/PHD-type
Pfam	PF13920	4.0E-8	271	312	No hit	No description
SuperFamily	SSF57850	3.26E-13	271	314	No hit	No description
CDD	cd00162	4.91E-7	272	313	No hit	No description
SMART	SM00184	2.0E-4	272	309	IPR001841	Zinc finger, RING-type
PROSITE profile	PS50089	10.571	272	310	IPR001841	Zinc finger, RING-type
PROSITE pattern	PS00518	0	287	296	IPR017907	Zinc finger, RING-type, conserved site

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005515	Molecular Function	protein binding
GO:0008270	Molecular Function	zinc ion binding

Sequence ? help Back to Top
Protein Sequence Length: 333 aa Download sequence Send to blast
MADDGGGGGG DAGSGGSAPV CSFVRKPPKN IRKRPTAPAG SDDEDDDSGA IAAARAKKAP 60 SSTSKLFFSS ADSSSEPRRF QYESSRTIQA STDSRATATL ETETEFDRDA RAIRERQLKQ 120 AEESLKKNPS APGSASGSGS GSGSGEVYKG IHGYTDYKAG FRREHTVSSE KAGGSHGPLR 180 ASAHIRLSAR FDYQPDICKD YKETGYCGYG DSCKFMHDRG DYKSGWQIEK EWEEAEKARK 240 RRIAMRGGDG SDEEAGEEDD DDDDEEALPF ACYICRQPFV DPVVTKCKHY FCEHCALKHH 300 SKNKKCFVCN KPTLGIFNAA QEIRKKMAQD KKQ

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5z56_M	1e-61	82	327	100	317	RING finger protein 113A
5z58_M	1e-61	82	327	100	317	RING finger protein 113A
6ff4_t	1e-61	82	327	100	317	RING finger protein 113A
6ff7_t	1e-61	82	327	100	317	RING finger protein 113A
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	OB02G21780.1

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	CT831567	0.0	CT831567.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCSA018I20, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006647193.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 15
Swissprot	Q6K4V3	1e-178	C3H15_ORYSJ; Zinc finger CCCH domain-containing protein 15
TrEMBL	J3LC11	0.0	J3LC11_ORYBR; Uncharacterized protein
STRING	OB02G21780.1	0.0	(Oryza brachyantha)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP8071	36	45

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G01350.1	1e-116	C3H family protein

Link Out ? help Back to Top
Entrez Gene	102710179

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]