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

Bostr.3640s0020.1.p

Organism

Boechera stricta

Taxonomic ID

72658

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Boechereae; Boechera

Family

NF-YC

Protein Properties

Length: 292aa MW: 32341.9 Da PI: 4.8515

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Bostr.3640s0020.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YC	58.4	1.6e-18	6	86	18	98
NF-YC 18 nhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifdflvdivpr 98 ++++P arikki++adedv +i+ +Pvl+sk+ elf+ +l r++ + e +t+ ++ +v+r ++fdfl ++v + Bostr.3640s0020.1.p 6 DTRFPAARIKKIMQADEDVGKIALAVPVLVSKSLELFLQDLCDRTYEITLERGAKTVSSLHLKHCVERYNVFDFLREVVSK 86 5789************************************************************************99976 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.20.10	2.7E-25	3	72	IPR009072	Histone-fold
SuperFamily	SSF47113	2.37E-19	4	88	IPR009072	Histone-fold
Pfam	PF00808	2.7E-19	8	71	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0005829	Cellular Component	cytosol
GO:0046982	Molecular Function	protein heterodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 292 aa Download sequence Send to blast
MRKKLDTRFP AARIKKIMQA DEDVGKIALA VPVLVSKSLE LFLQDLCDRT YEITLERGAK 60 TVSSLHLKHC VERYNVFDFL REVVSKVPDY GHSQGQGHGD VTMDDRSISK RRKPISDEVN 120 DSDEEYKKSK MQEMGNAKPS GRGSRGRGRG RGRGGRAART AERESLNPEM ELETAIVGQP 180 PPEDSIKMHV SESSPQENEK KDVDGTAVSN EDTKQHLQNP KEGIDFDLNS ESLDLNETKL 240 APTTGTTTSV ATASEDYSGW PMMDIGKLDP AQLASLGKRI DEDEEDYDEE G*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1jfi_A	8e-23	2	72	5	75	Transcription Regulator NC2 alpha chain
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	144	153	RGRGRGRGRG

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Bostr.3640s0020.1.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	AF462841	0.0	AF462841.1 Arabidopsis thaliana At3g12480/MQC3.32 mRNA, complete cds.
GenBank	AY143847	0.0	AY143847.1 Arabidopsis thaliana At3g12480/MQC3.32 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010465016.1	1e-177	PREDICTED: dr1-associated corepressor-like
TrEMBL	Q1L0Q8	0.0	Q1L0Q8_BOEST; At3g12480-like protein
STRING	Bostr.3640s0020.1.p	0.0	(Boechera stricta)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3506	24	58

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G12480.1	1e-161	nuclear factor Y, subunit C11

Link Out ? help Back to Top
Phytozome	Bostr.3640s0020.1.p

Publications ? help Back to Top
Windsor AJ, et al. Partial shotgun sequencing of the Boechera stricta genome reveals extensive microsynteny and promoter conservation with Arabidopsis. Plant Physiol., 2006. 140(4): p. 1169-82 [PMID:16607030]