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

KN539975.1_FGP005

Organism

Oryza longistaminata

Taxonomic ID

4528

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: 311aa MW: 35429.2 Da PI: 8.4779

Description

MIKC_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
KN539975.1_FGP005	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	99.3	1.5e-31	84	134	1	51
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 krienk+nrqvtf+kRrng+lKKA+ELSvLCdaeva+iifs++gklye++s KN539975.1_FGP005 84 KRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCS 134 79***********************************************96 PP
2	K-box	76.3	7.9e-26	171	238	33	100
K-box 33 reqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100 +++R+llGedL+sL +keL++Le+qL++slk++R++++++l++q+ elq+ke++++e+n++Lr+klee KN539975.1_FGP005 171 ENLRNLLGEDLDSLGIKELESLEKQLDSSLKHVRTTRTKHLVDQLTELQRKEQMVSEANRCLRRKLEE 238 788**************************************************************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	1.3E-41	76	135	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	33.389	76	136	IPR002100	Transcription factor, MADS-box
CDD	cd00265	5.41E-46	77	152	No hit	No description
SuperFamily	SSF55455	7.59E-34	77	165	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.6E-32	78	98	IPR002100	Transcription factor, MADS-box
PROSITE pattern	PS00350	0	78	132	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	3.3E-26	85	132	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.6E-32	98	113	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.6E-32	113	134	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS51297	11.267	149	242	IPR002487	Transcription factor, K-box
Pfam	PF01486	1.8E-18	171	236	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: 311 aa Download sequence Send to blast
MTMAHRAGAG RSHVVVNGDG HPPMKRRVVV KKTETDGWTD GWAWAASDGR DPSWFPETRY 60 AAEHLGFPTR WRSIGMGRGR VELKRIENKI NRQVTFAKRR NGLLKKAYEL SVLCDAEVAL 120 IIFSNRGKLY EFCSTQSMTK TLEKYQKCSY AGPETAVQNR ETNCLDVISL ENLRNLLGED 180 LDSLGIKELE SLEKQLDSSL KHVRTTRTKH LVDQLTELQR KEQMVSEANR CLRRKLEESN 240 HVRGQQVWEQ GCNLIGYERQ PEVQQPLHGG NGFFHPLDAA GEPTLQIGYP AEHHEAMNSA 300 CMNTYMPPWL P

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3mu6_A	4e-20	77	145	1	68	Myocyte-specific enhancer factor 2A
3mu6_B	4e-20	77	145	1	68	Myocyte-specific enhancer factor 2A
3mu6_C	4e-20	77	145	1	68	Myocyte-specific enhancer factor 2A
3mu6_D	4e-20	77	145	1	68	Myocyte-specific enhancer factor 2A
5f28_A	6e-20	76	161	1	83	MEF2C
5f28_B	6e-20	76	161	1	83	MEF2C
5f28_C	6e-20	76	161	1	83	MEF2C
5f28_D	6e-20	76	161	1	83	MEF2C
6byy_A	6e-20	76	161	1	83	MEF2 CHIMERA
6byy_B	6e-20	76	161	1	83	MEF2 CHIMERA
6byy_C	6e-20	76	161	1	83	MEF2 CHIMERA
6byy_D	6e-20	76	161	1	83	MEF2 CHIMERA
6bz1_A	6e-20	76	159	1	81	MEF2 CHIMERA
6bz1_B	6e-20	76	159	1	81	MEF2 CHIMERA
6bz1_C	6e-20	76	159	1	81	MEF2 CHIMERA
6bz1_D	6e-20	76	159	1	81	MEF2 CHIMERA
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor.
UniProt	Probable transcription factor. May be involved in the control of flowering time. {ECO:0000269\|PubMed:9339904, ECO:0000269\|Ref.10}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	KN539975.1_FGP005

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	AK100263	0.0	AK100263.1 Oryza sativa Japonica Group cDNA clone:J023063L04, full insert sequence.
GenBank	AY551921	0.0	AY551921.1 Oryza sativa (japonica cultivar-group) MADS-box protein RMADS216 mRNA, complete cds.
GenBank	FJ750934	0.0	FJ750934.1 Oryza sativa clone KCS054B01 MADS-box transcription factor 7 mRNA, complete cds.
GenBank	OSU31994	0.0	U31994.1 Oryza sativa MADS box protein OsMADS45 mRNA, complete cds.
GenBank	OSU78891	0.0	U78891.2 Oryza sativa MADS box protein (MADS7) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015648762.1	1e-164	MADS-box transcription factor 7
Swissprot	P0C5B0	1e-165	MADS7_ORYSI; MADS-box transcription factor 7
Swissprot	Q0J466	1e-165	MADS7_ORYSJ; MADS-box transcription factor 7
TrEMBL	A0A0D3H2I1	0.0	A0A0D3H2I1_9ORYZ; Uncharacterized protein
STRING	OBART08G21550.2	0.0	(Oryza barthii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP3483	34	69

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G24260.2	9e-80	MIKC_MADS 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] Shitsukawa N, et al. Genetic and epigenetic alteration among three homoeologous genes of a class E MADS box gene in hexaploid wheat. Plant Cell, 2007. 19(6): p. 1723-37 [PMID:17586655] Bai X,Wang Q,Chu C Excision of a selective marker in transgenic rice using a novel Cre/loxP system controlled by a floral specific promoter. Transgenic Res., 2008. 17(6): p. 1035-43 [PMID:18437520] Qu L, et al. Expression pattern and functional analysis of a MADS-box gene M79 from rice. Sci. China, C, Life Sci., 2001. 44(2): p. 161-9 [PMID:18726433] Cui R, et al. Functional conservation and diversification of class E floral homeotic genes in rice (Oryza sativa). Plant J., 2010. 61(5): p. 767-81 [PMID:20003164] Li H, et al. The AGL6-like gene OsMADS6 regulates floral organ and meristem identities in rice. Cell Res., 2010. 20(3): p. 299-313 [PMID:20038961] Seok HY, et al. Rice ternary MADS protein complexes containing class B MADS heterodimer. Biochem. Biophys. Res. Commun., 2010. 401(4): p. 598-604 [PMID:20888318] Tang X, et al. Global gene profiling of laser-captured pollen mother cells indicates molecular pathways and gene subfamilies involved in rice meiosis. Plant Physiol., 2010. 154(4): p. 1855-70 [PMID:20959420] Wang SS,Wang CS,Tseng TH,Hou YL,Chen KY High-resolution genetic mapping and candidate gene identification of the SLP1 locus that controls glume development in rice. Theor. Appl. Genet., 2011. 122(8): p. 1489-96 [PMID:21327937] Li H, et al. Rice MADS6 interacts with the floral homeotic genes SUPERWOMAN1, MADS3, MADS58, MADS13, and DROOPING LEAF in specifying floral organ identities and meristem fate. Plant Cell, 2011. 23(7): p. 2536-52 [PMID:21784949] Yoshida H Is the lodicule a petal: molecular evidence? Plant Sci., 2012. 184: p. 121-8 [PMID:22284716] Duan Y, et al. Characterization of Osmads6-5, a null allele, reveals that OsMADS6 is a critical regulator for early flower development in rice (Oryza sativa L.). Plant Mol. Biol., 2012. 80(4-5): p. 429-42 [PMID:22933119] Wong CE,Singh MB,Bhalla PL Novel members of the AGAMOUS LIKE 6 subfamily of MIKCC-type MADS-box genes in soybean. BMC Plant Biol., 2013. 13: p. 105 [PMID:23870482] Hu Z,Ding X,Hu S,Sun Y,Xia L Tissue-specifically regulated site-specific excision of selectable marker genes in bivalent insecticidal, genetically-modified rice. Biotechnol. Lett., 2013. 35(12): p. 2177-83 [PMID:23974493] Bai X, et al. Regulatory role of FZP in the determination of panicle branching and spikelet formation in rice. Sci Rep, 2016. 6: p. 19022 [PMID:26744119] Dreni L,Zhang D Flower development: the evolutionary history and functions of the AGL6 subfamily MADS-box genes. J. Exp. Bot., 2016. 67(6): p. 1625-38 [PMID:26956504]