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

OGLUM02G00350.1

Organism

Oryza glumaepatula

Taxonomic ID

40148

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

MIKC_MADS

Protein Properties

Length: 279aa MW: 31482.7 Da PI: 7.8044

Description

MIKC_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OGLUM02G00350.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	87.3	8.6e-28	50	99	2	51
---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 rie+ + rqvtfskRr g+lKKA+ELSvLCdaeva+i+fs++g+ly ++s OGLUM02G00350.1 50 RIEDATSRQVTFSKRRSGLLKKAFELSVLCDAEVALIVFSPRGRLYQFAS 99 8***********************************************86 PP
2	K-box	73.1	8.1e-25	117	212	4	99
K-box 4 ssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 +s+ + e +++ +++ e+++L k+ie ++ + +llGe+L+s+s++eLq+Le qLeksl +iR+kK+++l++qi el++ke +l +en+ Lr + OGLUM02G00350.1 117 NSSAHEEGEESCKWRSEATNLGKKIEAIEGYKSKLLGEGLGSCSVQELQELEVQLEKSLCSIRQKKQKMLMDQILELREKEMNLLKENMVLRDQ 210 3444467778889*******************************************************************************98 PP K-box 98 le 99 + OGLUM02G00350.1 211 CK 212 76 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00265	1.54E-34	32	118	No hit	No description
PROSITE profile	PS50066	29.716	41	101	IPR002100	Transcription factor, MADS-box
SMART	SM00432	1.8E-35	41	100	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	3.7E-28	43	63	IPR002100	Transcription factor, MADS-box
PROSITE pattern	PS00350	0	43	97	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	2.35E-29	43	119	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	4.5E-26	50	97	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	3.7E-28	63	78	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	3.7E-28	78	99	IPR002100	Transcription factor, MADS-box
Pfam	PF01486	8.0E-25	124	211	IPR002487	Transcription factor, K-box
PROSITE profile	PS51297	13.353	127	217	IPR002487	Transcription factor, K-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:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 279 aa Download sequence Send to blast
MAAAAAGMGG GGGVQQQETT TTVVQVAAEA SRKKVEVRSA GRRGRREMRR IEDATSRQVT 60 FSKRRSGLLK KAFELSVLCD AEVALIVFSP RGRLYQFASA SSDLQRTIDR YLNHTKNSSA 120 HEEGEESCKW RSEATNLGKK IEAIEGYKSK LLGEGLGSCS VQELQELEVQ LEKSLCSIRQ 180 KKQKMLMDQI LELREKEMNL LKENMVLRDQ CKALSSPWST SVGELKNKQA DDDVHRHEDY 240 SGGGVRDDDD RRMMEDVETD LYKILMSWSA VVFPQFWCY

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1tqe_P	4e-18	43	122	3	77	Myocyte-specific enhancer factor 2B
1tqe_Q	4e-18	43	122	3	77	Myocyte-specific enhancer factor 2B
1tqe_R	4e-18	43	122	3	77	Myocyte-specific enhancer factor 2B
1tqe_S	4e-18	43	122	3	77	Myocyte-specific enhancer factor 2B
6c9l_A	4e-18	43	122	3	77	Myocyte-specific enhancer factor 2B
6c9l_B	4e-18	43	122	3	77	Myocyte-specific enhancer factor 2B
6c9l_C	4e-18	43	122	3	77	Myocyte-specific enhancer factor 2B
6c9l_D	4e-18	43	122	3	77	Myocyte-specific enhancer factor 2B
6c9l_E	4e-18	43	122	3	77	Myocyte-specific enhancer factor 2B
6c9l_F	4e-18	43	122	3	77	Myocyte-specific enhancer factor 2B
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Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor active in flowering time control. May control internode elongation and promote floral transition phase. May act upstream of the floral regulators MADS1, MADS14, MADS15 and MADS18 in the floral induction pathway. {ECO:0000269\|PubMed:15144377, ECO:0000269\|PubMed:17166135}.

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	AP004049	1e-169	AP004049.2 Oryza sativa Japonica Group genomic DNA, chromosome 2, BAC clone:OJ1212_C06.
GenBank	AP006720	1e-169	AP006720.1 Oryza sativa Japonica Group genomic DNA, chromosome 2, clone:OJA1212_C06.
GenBank	AP014958	1e-169	AP014958.1 Oryza sativa Japonica Group DNA, chromosome 2, cultivar: Nipponbare, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015625202.1	1e-160	MADS-box protein SOC1 isoform X1
Swissprot	Q9XJ60	8e-65	MAD50_ORYSJ; MADS-box transcription factor 50
TrEMBL	A0A0D9YL16	0.0	A0A0D9YL16_9ORYZ; Uncharacterized protein
STRING	OGLUM02G00350.2	0.0	(Oryza glumipatula)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G45660.1	3e-49	AGAMOUS-like 20

Publications ? help Back to Top
Thomson MJ,Edwards JD,Septiningsih EM,Harrington SE,McCouch SR Substitution mapping of dth1.1, a flowering-time quantitative trait locus (QTL) associated with transgressive variation in rice, reveals multiple sub-QTL. Genetics, 2006. 172(4): p. 2501-14 [PMID:16452146] Park SJ, et al. Rice Indeterminate 1 (OsId1) is necessary for the expression of Ehd1 (Early heading date 1) regardless of photoperiod. Plant J., 2008. 56(6): p. 1018-29 [PMID:18774969] Lee S,Jeong DH,An G A possible working mechanism for rice SVP-group MADS-box proteins as negative regulators of brassinosteroid responses. Plant Signal Behav, 2008. 3(7): p. 471-4 [PMID:19704489] Maas LF,McClung A,McCouch S Dissection of a QTL reveals an adaptive, interacting gene complex associated with transgressive variation for flowering time in rice. Theor. Appl. Genet., 2010. 120(5): p. 895-908 [PMID:19949767] Sun C, et al. The histone methyltransferase SDG724 mediates H3K36me2/3 deposition at MADS50 and RFT1 and promotes flowering in rice. Plant Cell, 2012. 24(8): p. 3235-47 [PMID:22892321] Choi SC, et al. Trithorax group protein Oryza sativa Trithorax1 controls flowering time in rice via interaction with early heading date3. Plant Physiol., 2014. 164(3): p. 1326-37 [PMID:24420930] Núñez-López L,Aguirre-Cruz A,Barrera-Figueroa BE,Peña-Castro JM Improvement of enzymatic saccharification yield in Arabidopsis thaliana by ectopic expression of the rice SUB1A-1 transcription factor. PeerJ, 2015. 3: p. e817 [PMID:25780769] Jin J, et al. MORF-RELATED GENE702, a Reader Protein of Trimethylated Histone H3 Lysine 4 and Histone H3 Lysine 36, Is Involved in Brassinosteroid-Regulated Growth and Flowering Time Control in Rice. Plant Physiol., 2015. 168(4): p. 1275-85 [PMID:25855537] Liu X, et al. Brassinosteroid (BR) biosynthetic gene lhdd10 controls late heading and plant height in rice (Oryza sativa L.). Plant Cell Rep., 2016. 35(2): p. 357-68 [PMID:26518431] Hwang YH, et al. Functional conservation of rice OsNF-YB/YC and Arabidopsis AtNF-YB/YC proteins in the regulation of flowering time. Plant Cell Rep., 2016. 35(4): p. 857-65 [PMID:26754793] Shibaya T, et al. Hd18, Encoding Histone Acetylase Related to Arabidopsis FLOWERING LOCUS D, is Involved in the Control of Flowering Time in Rice. Plant Cell Physiol., 2016. 57(9): p. 1828-38 [PMID:27318280] Alter P, et al. Flowering Time-Regulated Genes in Maize Include the Transcription Factor ZmMADS1. Plant Physiol., 2016. 172(1): p. 389-404 [PMID:27457125]