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

Sobic.001G486000.2.p

Common Name

Sb01g045500, SORBIDRAFT_01g045500

Organism

Sorghum bicolor

Taxonomic ID

4558

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum

Family

NF-YA

Protein Properties

Length: 244aa MW: 26500.4 Da PI: 9.3445

Description

NF-YA family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.001G486000.2.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	CBFB_NFYA	106.9	1.7e-33	132	188	1	58
CBFB_NFYA 1 deplYVNaKQyqrIlkRRqkRakleeekkldeksrkpylheSRhkhAlrRpRgsgGrF 58 +ep+YVNaKQy++Il+RRq Rakle+e+kl ksrkpylheSRh hA++R+Rg+gGrF Sobic.001G486000.2.p 132 EEPIYVNAKQYHAILRRRQLRAKLEAENKL-VKSRKPYLHESRHLHAMKRARGTGGRF 188 69**************************.************************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00521	1.1E-38	130	191	IPR001289	Nuclear transcription factor Y subunit A
PROSITE profile	PS51152	39.221	131	191	IPR001289	Nuclear transcription factor Y subunit A
Pfam	PF02045	7.2E-29	133	188	IPR001289	Nuclear transcription factor Y subunit A
PRINTS	PR00616	1.1E-24	134	156	IPR001289	Nuclear transcription factor Y subunit A
PROSITE pattern	PS00686	0	136	156	IPR018362	CCAAT-binding factor, conserved site
PRINTS	PR00616	1.1E-24	165	188	IPR001289	Nuclear transcription factor Y subunit A

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0010262	Biological Process	somatic embryogenesis
GO:0016602	Cellular Component	CCAAT-binding factor complex
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 244 aa Download sequence Send to blast
MRQNGTVMIQ FGHQMPDYDS PATQSTSESH QEVSGMSEGS LNEHNDHSGN LDGYSKSDEN 60 KMMSALSLGN PETAYAHPKP DRTQSFAISY PYADPYYGGA VAAYGSHAIM HPQLVGMVSS 120 SRVPLPIEPA AEEPIYVNAK QYHAILRRRQ LRAKLEAENK LVKSRKPYLH ESRHLHAMKR 180 ARGTGGRFLN TKQQPESPGS GSGGGSSDAQ RMPMNGGGLF TKHEHSLPPG DRHHYHARGG 240 GGA*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4awl_A	3e-23	132	200	2	74	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT ALPHA
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in flowers and siliques. {ECO:0000269\|PubMed:11250072}.

Functional Description ? help Back to Top
Source	Description
UniProt	Stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sobic.001G486000.2.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	BT054250	0.0	BT054250.1 Zea mays full-length cDNA clone ZM_BFb0198B09 mRNA, complete cds.
GenBank	BT069779	0.0	BT069779.1 Zea mays full-length cDNA clone ZM_BFb0282K22 mRNA, complete cds.
GenBank	EU967250	0.0	EU967250.1 Zea mays clone 300715 nuclear transcription factor Y subunit A-3 mRNA, complete cds.
GenBank	KM655746	0.0	KM655746.1 Zea mays NF-YA1 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002465770.1	1e-179	nuclear transcription factor Y subunit A-7 isoform X2
Swissprot	Q9LVJ7	3e-44	NFYA6_ARATH; Nuclear transcription factor Y subunit A-6
TrEMBL	C5WVV8	1e-178	C5WVV8_SORBI; Uncharacterized protein
STRING	Sb01g045500.1	1e-179	(Sorghum bicolor)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G14020.1	8e-42	nuclear factor Y, subunit A6

Link Out ? help Back to Top
Phytozome	Sobic.001G486000.2.p
Entrez Gene	8059799

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Zhao H, et al. The Arabidopsis thaliana Nuclear Factor Y Transcription Factors. Front Plant Sci, 2016. 7: p. 2045 [PMID:28119722]