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

OBART01G02620.1

Organism

Oryza barthii

Taxonomic ID

65489

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

Protein Properties

Length: 325aa MW: 34874.6 Da PI: 10.5064

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OBART01G02620.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	94.6	7e-30	136	237	1	86
EEEE-..-HHHHTT-EE--HHH.HTT................---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT- CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh................ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegD 78 f+k+ tpsdv+k++rlv+pk++ae+h + +++ l +ed +g++W+++++y+++s++yvltkGW++Fv+++gL++gD OBART01G02620.1 136 FEKAVTPSDVGKLNRLVVPKQHAEKHfplrraassdsasaaaAAATGKGVLLNFEDGEGKVWRFRYSYWNSSQSYVLTKGWSRFVREKGLRAGD 229 89**************************9999888887775555699***************************************** PP EEEEEE-S CS B3 79 fvvFkldg 86 ++vF+++ OBART01G02620.1 230 TIVFSRSA 237 **9664 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	5.3E-39	131	254	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	8.24E-30	133	248	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	7.65E-28	134	236	No hit	No description
PROSITE profile	PS50863	13.648	136	251	IPR003340	B3 DNA binding domain
SMART	SM01019	4.5E-23	136	251	IPR003340	B3 DNA binding domain
Pfam	PF02362	2.7E-27	136	237	IPR003340	B3 DNA binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 325 aa Download sequence Send to blast
MGVVSFSSTS SGASTATTES GGAVRMSPEP VVAVAAAAQQ LPVVKGVDSA DEVVTSKPAA 60 AAAASVAQQS SRYKGVVPQP NGRWGAQIYE RHARAEIVDM LRKHTYADEL RQGLRRGRGM 120 GARAQPTPSW AREPLFEKAV TPSDVGKLNR LVVPKQHAEK HFPLRRAASS DSASAAAAAA 180 TGKGVLLNFE DGEGKVWRFR YSYWNSSQSY VLTKGWSRFV REKGLRAGDT IVFSRSAYGP 240 DKLLFIDCKK NNAAVAATTT CAGDERPTTT TSGAEPRVVR LFGVDIAGGD CRKRERAVEM 300 GQEAFLLKRQ CVVHQRTPVL GALLL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1wid_A	4e-49	133	249	11	115	DNA-binding protein RAV1
Search in ModeBase

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	CP012609	0.0	CP012609.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 1 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015622259.1	1e-175	AP2/ERF and B3 domain-containing protein Os01g0141000
Swissprot	Q9AWS0	1e-176	Y1410_ORYSJ; AP2/ERF and B3 domain-containing protein Os01g0141000
TrEMBL	A0A0D3EJF2	0.0	A0A0D3EJF2_9ORYZ; Uncharacterized protein
STRING	OBART01G02620.1	0.0	(Oryza barthii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP456	38	203

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G68840.2	3e-63	related to ABI3/VP1 2

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]