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

Solyc01g008490.2.1

Common Name

LOC101264750

Organism

Solanum lycopersicum

Taxonomic ID

4081

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon

Family

NF-YA

Protein Properties

Length: 313aa MW: 33861.4 Da PI: 7.0055

Description

NF-YA family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Solyc01g008490.2.1	genome	ITAG	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	CBFB_NFYA	100.8	1.3e-31	168	224	1	58
CBFB_NFYA 1 deplYVNaKQyqrIlkRRqkRakleeekkldeksrkpylheSRhkhAlrRpRgsgGrF 58 +ep+YVNaKQy++Il+RR++Rak+e ekkl +k rkpylheSRh+hAl+R+R+sgGrF Solyc01g008490.2.1 168 QEPVYVNAKQYHGILRRRESRAKAELEKKL-IKVRKPYLHESRHQHALKRARASGGRF 224 69**************************.************************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00521	9.1E-35	166	227	IPR001289	Nuclear transcription factor Y subunit A
PROSITE profile	PS51152	36.439	167	227	IPR001289	Nuclear transcription factor Y subunit A
Pfam	PF02045	6.8E-27	169	224	IPR001289	Nuclear transcription factor Y subunit A
PRINTS	PR00616	3.9E-23	170	192	IPR001289	Nuclear transcription factor Y subunit A
PROSITE pattern	PS00686	0	172	192	IPR018362	CCAAT-binding factor, conserved site
PRINTS	PR00616	3.9E-23	201	224	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: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: 313 aa Download sequence Send to blast
MQSESKSANC GEARTYNVPN STLEPWWNTA GNNPVSLGLM RGSPSDSPSP EQAVDGLSQS 60 DGGSNEEADD TPEKSQSTIP KHSELDGSYV QVDQNLQPMA SAIPPKGDGC ITQPPQFELV 120 AHSMACAPNL YVDPYYGGIL APFGQPMVPP HVLDMHHPRM PLPHEMAQEP VYVNAKQYHG 180 ILRRRESRAK AELEKKLIKV RKPYLHESRH QHALKRARAS GGRFAKKSDA GTSKGDGSGS 240 AVPLQSVHSS GSEPLLSNAA DVPEWHKDRS LAEHQNSYSN GNGYGKQISF QESKYQAQSA 300 QVGEGGSSGQ RW*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4awl_A	1e-18	168	243	2	77	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT ALPHA
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Les.2196	0.0	floral bud\| fruit\| leaf

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Solyc01g008490.2.1

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	AC245977	0.0	Solanum lycopersicum strain Heinz 1706 chromosome 1 clone sle-58j6 map 1, complete sequence
GenBank	AC246106	0.0	Solanum lycopersicum strain Heinz 1706 chromosome 1 clone hba-9i12 map 1, complete sequence
GenBank	AC246623	0.0	Solanum lycopersicum strain Heinz 1706 chromosome 1 clone slm-36c24 map 1, complete sequence

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004228516.1	0.0	nuclear transcription factor Y subunit A-1
TrEMBL	M1AQ62	0.0	M1AQ62_SOLTU; Uncharacterized protein
STRING	Solyc01g008490.2.1	0.0	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA3111	22	48
Representative plant	OGRP9696	6	12

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G12840.4	9e-53	nuclear factor Y, subunit A1

Link Out ? help Back to Top
Phytozome	Solyc01g008490.2.1
Entrez Gene	101264750

Publications ? help Back to Top
Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments. Theor. Appl. Genet., 2005. 112(1): p. 72-84 [PMID:16208505]