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

Pavir.7NG402400.6.p

Organism

Panicum virgatum

Taxonomic ID

38727

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum

Family

MIKC_MADS

Protein Properties

Length: 242aa MW: 27724.7 Da PI: 8.8095

Description

MIKC_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.7NG402400.6.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	83.4	1.4e-26	9	59	1	51
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 k+ien +nrqvtfskRr g+lKKA+EL +LCda++ viifs +g++yeyss Pavir.7NG402400.6.p 9 KKIENPTNRQVTFSKRRMGLLKKANELAILCDAQIGVIIFSGSGRMYEYSS 59 68***********************************************96 PP
2	K-box	60.5	6.6e-21	82	158	15	91
K-box 15 eslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeen 91 qqe++++k+e + L+ h +GedL s s+++L +Leqq+e sl k+R +K+ell +q+ e++++e ++ee+ Pavir.7NG402400.6.p 82 MDIQQEMTRMKDERNRLRIIMGHCMGEDLASFSVEDLSNLEQQMEFSLYKVRLRKQELLDQQLLEMRHREMHMSEEQ 158 5689********************************************************************99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00432	1.0E-38	1	60	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	31.371	1	61	IPR002100	Transcription factor, MADS-box
CDD	cd00265	3.59E-39	2	76	No hit	No description
SuperFamily	SSF55455	6.8E-30	2	82	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	4.9E-28	3	23	IPR002100	Transcription factor, MADS-box
PROSITE pattern	PS00350	0	3	57	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	1.1E-24	10	57	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	4.9E-28	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	4.9E-28	38	59	IPR002100	Transcription factor, MADS-box
Pfam	PF01486	3.5E-18	80	159	IPR002487	Transcription factor, K-box
PROSITE profile	PS51297	12.09	81	179	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: 242 aa Download sequence Send to blast
MGRGKVELKK IENPTNRQVT FSKRRMGLLK KANELAILCD AQIGVIIFSG SGRMYEYSSP 60 PWRIANIFDR YLKAPSTRFE EMDIQQEMTR MKDERNRLRI IMGHCMGEDL ASFSVEDLSN 120 LEQQMEFSLY KVRLRKQELL DQQLLEMRHR EMHMSEEQSG YLCLMDPAAR GQSQAAEMAA 180 NPRPFPWWDV GASASASGSQ RPHGRDAEPS VTALQLSPRL HGYRLQPRQP NLQDASLHGW 240 L*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1tqe_P	4e-17	1	60	1	60	Myocyte-specific enhancer factor 2B
1tqe_Q	4e-17	1	60	1	60	Myocyte-specific enhancer factor 2B
1tqe_R	4e-17	1	60	1	60	Myocyte-specific enhancer factor 2B
1tqe_S	4e-17	1	60	1	60	Myocyte-specific enhancer factor 2B
6byy_A	4e-17	1	60	1	60	MEF2 CHIMERA
6byy_B	4e-17	1	60	1	60	MEF2 CHIMERA
6byy_C	4e-17	1	60	1	60	MEF2 CHIMERA
6byy_D	4e-17	1	60	1	60	MEF2 CHIMERA
6bz1_A	4e-17	1	60	1	60	MEF2 CHIMERA
6bz1_B	4e-17	1	60	1	60	MEF2 CHIMERA
6bz1_C	4e-17	1	60	1	60	MEF2 CHIMERA
6bz1_D	4e-17	1	60	1	60	MEF2 CHIMERA
6c9l_A	4e-17	1	60	1	60	Myocyte-specific enhancer factor 2B
6c9l_B	4e-17	1	60	1	60	Myocyte-specific enhancer factor 2B
6c9l_C	4e-17	1	60	1	60	Myocyte-specific enhancer factor 2B
6c9l_D	4e-17	1	60	1	60	Myocyte-specific enhancer factor 2B
6c9l_E	4e-17	1	60	1	60	Myocyte-specific enhancer factor 2B
6c9l_F	4e-17	1	60	1	60	Myocyte-specific enhancer factor 2B
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.7NG402400.6.p

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	BT038532	1e-150	BT038532.1 Zea mays full-length cDNA clone ZM_BFb0284C04 mRNA, complete cds.
GenBank	BT069133	1e-150	BT069133.1 Zea mays full-length cDNA clone ZM_BFb0202H05 mRNA, complete cds.
GenBank	HQ858737	1e-150	HQ858737.1 Zea mays clone UT1435 MADS transcription factor mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025822905.1	1e-158	MADS-box transcription factor 31-like isoform X2
Swissprot	Q84NC2	2e-84	MAD31_ORYSJ; MADS-box transcription factor 31
TrEMBL	A0A2T8IDV5	1e-159	A0A2T8IDV5_9POAL; Uncharacterized protein
STRING	Pavir.Gb00526.1.p	1e-178	(Panicum virgatum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G23260.2	9e-40	MIKC_MADS family protein

Link Out ? help Back to Top
Phytozome	Pavir.7NG402400.6.p

Publications ? help Back to Top
Schilling S, et al. Non-canonical structure, function and phylogeny of the Bsister MADS-box gene OsMADS30 of rice (Oryza sativa). Plant J., 2015. 84(6): p. 1059-72 [PMID:26473514]