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

Sof004720

Organism

Saccharum officinarum

Taxonomic ID

4547

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Saccharinae; Saccharum; Saccharum officinarum complex

Family

MIKC_MADS

Protein Properties

Length: 198aa MW: 22346.7 Da PI: 6.3036

Description

MIKC_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PUT-157a-Saccharum_officinarum-65732	PU_ref	plantGDB	View CDS
PUT-157a-Saccharum_officinarum-65733	PU_unref	plantGDB	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	33.1	7e-11	1	25	27	51
HHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 27 LSvLCdaevaviifsstgklyeyss 51 +SvLCdaeva+++fs++gkl+ey+s Sof004720 1 ISVLCDAEVALVVFSPRGKLFEYAS 25 7**********************86 PP
2	K-box	68	3.2e-23	45	137	7	99
K-box 7 ksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 +++ +++ e+ + +++ L k++e L +R+llGe Le++s++eL++Le +Leksl iR +K+ ll eq+++l++ke +l++ n++Lr+k + Sof004720 45 NKTIQQDIEQVKADAEGLAKKLEALDAYKRKLLGERLEECSIEELHSLEVKLEKSLHCIRGRKTMLLEEQVNKLKEKEMNLRKSNEDLREKCK 137 3366788999********************************************************************************976 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF00319	1.6E-7	1	23	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	6.8E-13	1	50	IPR002100	Transcription factor, MADS-box
PROSITE profile	PS50066	12.348	1	27	IPR002100	Transcription factor, MADS-box
Pfam	PF01486	1.2E-23	49	137	IPR002487	Transcription factor, K-box
PROSITE profile	PS51297	13.061	52	142	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: 198 aa Download sequence Send to blast
ISVLCDAEVA LVVFSPRGKL FEYASGSVQK TIERYRTYTK DNVSNKTIQQ DIEQVKADAE 60 GLAKKLEALD AYKRKLLGER LEECSIEELH SLEVKLEKSL HCIRGRKTML LEEQVNKLKE 120 KEMNLRKSNE DLREKCKKQP PMLMAPPPPP APAVITVEDD HPEPKDDGVD VETELFIGLP 180 GRDYRSSKEK AAVAIRSG

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Sof.20518	1e-105	bud\| crown\| inflorescence\| leaf\| meristem\| root\| stem

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Low expression in the young panicle continues to decline as the organ mature. {ECO:0000269\|PubMed:15144377, ECO:0000269\|PubMed:17166135}.
Uniprot	TISSUE SPECIFICITY: Expressed in mature leaves and at low levels in roots and young panicles. {ECO:0000269\|PubMed:15144377, ECO:0000269\|PubMed:17166135}.

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001105152.1	1e-122	MADS1
Swissprot	Q9XJ60	3e-92	MAD50_ORYSJ; MADS-box transcription factor 50
TrEMBL	Q9FR85	1e-120	Q9FR85_MAIZE; M5 protein
STRING	GRMZM2G171365_P01	1e-121	(Zea mays)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G45660.1	2e-45	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]