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

OBART01G42170.1

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

M-type_MADS

Protein Properties

Length: 70aa MW: 8050.3 Da PI: 10.5279

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OBART01G42170.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	83.7	1.1e-26	11	60	2	51
---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 rie+k rqv fskRr+g++KKA+EL LCdaeva+++fs+ gklyeyss OBART01G42170.1 11 RIEDKASRQVRFSKRRAGLFKKAFELALLCDAEVALLVFSPAGKLYEYSS 60 8***********************************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50066	28.735	2	62	IPR002100	Transcription factor, MADS-box
SMART	SM00432	9.3E-33	2	61	IPR002100	Transcription factor, MADS-box
CDD	cd00265	7.63E-34	3	64	No hit	No description
PRINTS	PR00404	1.4E-27	4	24	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	4.71E-27	4	63	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	5.0E-26	11	58	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.4E-27	24	39	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.4E-27	39	60	IPR002100	Transcription factor, MADS-box

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
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 70 aa Download sequence Send to blast
MARRGRVQLR RIEDKASRQV RFSKRRAGLF KKAFELALLC DAEVALLVFS PAGKLYEYSS 60 SSVHIEQDYS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1egw_A	2e-18	4	63	2	61	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_B	2e-18	4	63	2	61	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_C	2e-18	4	63	2	61	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_D	2e-18	4	63	2	61	MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
3kov_A	3e-18	4	63	2	61	Myocyte-specific enhancer factor 2A
3kov_B	3e-18	4	63	2	61	Myocyte-specific enhancer factor 2A
3kov_I	3e-18	4	63	2	61	Myocyte-specific enhancer factor 2A
3kov_J	3e-18	4	63	2	61	Myocyte-specific enhancer factor 2A
3mu6_A	2e-18	4	63	2	61	Myocyte-specific enhancer factor 2A
3mu6_B	2e-18	4	63	2	61	Myocyte-specific enhancer factor 2A
3mu6_C	2e-18	4	63	2	61	Myocyte-specific enhancer factor 2A
3mu6_D	2e-18	4	63	2	61	Myocyte-specific enhancer factor 2A
3p57_A	3e-18	4	63	2	61	Myocyte-specific enhancer factor 2A
3p57_B	3e-18	4	63	2	61	Myocyte-specific enhancer factor 2A
3p57_C	3e-18	4	63	2	61	Myocyte-specific enhancer factor 2A
3p57_D	3e-18	4	63	2	61	Myocyte-specific enhancer factor 2A
3p57_I	3e-18	4	63	2	61	Myocyte-specific enhancer factor 2A
3p57_J	3e-18	4	63	2	61	Myocyte-specific enhancer factor 2A
5f28_C	3e-18	4	63	3	62	MEF2C
5f28_D	3e-18	4	63	3	62	MEF2C
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in the regulation of flowering time under short day (SD) conditions. Functions as promoter of flowering under SD conditions, upstream of EHD1, HD3A and MADS14, but downstream of GIGANTEA (GI). May transmit a SD promotion signal from GI to EHD1. Functions independently of MADS50 to control flowering time. {ECO:0000269\|PubMed:17951465}.

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	AP012918	7e-99	AP012918.1 Oryza sativa Indica Group DNA, chromosome 1, BAC clone: K0158A04, cultivar: Kasalath, complete sequence.
GenBank	CP012609	7e-99	CP012609.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 1 sequence.
GenBank	CT834653	7e-99	CT834653.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCRA121C03, full insert sequence.
GenBank	DQ539617	7e-99	DQ539617.1 Oryza sativa (indica cultivar-group) MADS-box protein 84 (MADS84) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004971093.1	2e-36	MADS-box transcription factor 51
Swissprot	Q9XJ61	5e-37	MAD51_ORYSJ; MADS-box transcription factor 51
TrEMBL	A0A0D3EY02	3e-42	A0A0D3EY02_9ORYZ; Uncharacterized protein
TrEMBL	A2WYH7	3e-42	A2WYH7_ORYSI; Uncharacterized protein
STRING	OBART01G42170.1	5e-43	(Oryza barthii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP129	38	398

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G11880.1	3e-27	AGAMOUS-like 14

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] Kim SL,Lee S,Kim HJ,Nam HG,An G OsMADS51 is a short-day flowering promoter that functions upstream of Ehd1, OsMADS14, and Hd3a. Plant Physiol., 2007. 145(4): p. 1484-94 [PMID:17951465]