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

OB12G13420.1

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

Protein Properties

Length: 339aa MW: 37952.8 Da PI: 8.7714

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OB12G13420.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	96.6	1.7e-30	36	126	1	87
EEEE-..-HHHHTT-EE--HHH.HTT....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 f+k ltpsdv+k++rlv+pk++ae++ g + e++ l++edesg+ W+++++y+ +s++yvltkGW+++vk+++L++gD+v F++++ OB12G13420.1 36 FEKPLTPSDVGKLNRLVIPKQHAERYfplsGDSGEKGLLLSFEDESGKPWRFRYSYWTSSQSYVLTKGWSRYVKEKRLDAGDVVYFERVRG 126 99*************************9666668889**********************************************7642 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	1.4E-40	29	144	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	1.83E-29	32	127	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	2.81E-28	35	128	No hit	No description
PROSITE profile	PS50863	13.592	36	141	IPR003340	B3 DNA binding domain
SMART	SM01019	3.6E-22	36	141	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.5E-27	36	126	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: 339 aa Download sequence Send to blast
MAMHPLAQGH QAWPWGVAMY TNLHYHHHHH EREHLFEKPL TPSDVGKLNR LVIPKQHAER 60 YFPLSGDSGE KGLLLSFEDE SGKPWRFRYS YWTSSQSYVL TKGWSRYVKE KRLDAGDVVY 120 FERVRGSFGV GDRLFIGCRR RGDAAQTPAP PAVRVVPAGQ KXXXXXXXXX XXXXXXXXXX 180 XXXXXXXXES APATAVAAPP PPAVRVPPPT LNAGEQQPWS PMCYSTSGSS YPTSPANSYA 240 YHRSLDQDHS DILHAGESQR DADTKSSSAA SAPPSTRRLR LFGVNLDCGP EPEADQTTAM 300 YGYMHHQSPY AAVSAVPNYW SVLSAIKEYP RCRIKLAEN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5os9_A	2e-53	31	141	3	113	B3 domain-containing transcription factor NGA1
5os9_B	2e-53	31	141	3	113	B3 domain-containing transcription factor NGA1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	OB12G13420.1

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	AL928758	1e-140	AL928758.3 Oryza sativa chromosome 12, . BAC OSJNBb0075N21 of library OSJNBb from chromosome 12 of cultivar Nipponbare of ssp. japonica of Oryza sativa (rice), complete sequence.
GenBank	AP014968	1e-140	AP014968.1 Oryza sativa Japonica Group DNA, chromosome 12, cultivar: Nipponbare, complete sequence.
GenBank	CP012620	1e-140	CP012620.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 12 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015618154.1	1e-150	B3 domain-containing protein Os11g0156000-like
Swissprot	Q53QI0	1e-128	Y1160_ORYSJ; B3 domain-containing protein Os11g0156000
TrEMBL	J3NBI4	0.0	J3NBI4_ORYBR; Uncharacterized protein
STRING	OB12G13420.1	0.0	(Oryza brachyantha)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP2446	38	89

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G36080.2	3e-53	B3 family protein

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]