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

evm_27.model.AmTr_v1.0_scaffold00080.3

Common Name

AMTR_s00080p00025480

Organism

Amborella trichopoda

Taxonomic ID

13333

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella

Family

NF-YB

Protein Properties

Length: 249aa MW: 27726.7 Da PI: 6.9233

Description

NF-YB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00080.3	genome	TAGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YB	184.2	1.1e-57	93	189	1	97
NF-YB 1 vreqdrflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwal 71 vreqdrflPian+srimkk+lP n+ki+kdaketvqecvsefisf+tseasdkcqrekrktingddllwa+ evm_27.model.AmTr_v1.0_scaffold00080.3 93 VREQDRFLPIANISRIMKKALPPNGKIAKDAKETVQECVSEFISFITSEASDKCQREKRKTINGDDLLWAM 163 69******************************************************************* PP NF-YB 72 atlGfedyveplkvylkkyrelegek 97 +tlGfedy++plkvyl+ yre+eg++ evm_27.model.AmTr_v1.0_scaffold00080.3 164 STLGFEDYIDPLKVYLQMYREMEGDS 189 **********************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.20.10	4.5E-56	88	215	IPR009072	Histone-fold
SuperFamily	SSF47113	6.99E-41	96	208	IPR009072	Histone-fold
Pfam	PF00808	3.5E-28	99	163	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
PRINTS	PR00615	2.7E-20	127	145	No hit	No description
PROSITE pattern	PS00685	0	130	146	IPR003956	Transcription factor, NFYB/HAP3, conserved site
PRINTS	PR00615	2.7E-20	146	164	No hit	No description
PRINTS	PR00615	2.7E-20	165	183	No hit	No description

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:0016021	Cellular Component	integral component of membrane
GO:0043565	Molecular Function	sequence-specific DNA binding
GO:0046982	Molecular Function	protein heterodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 249 aa Download sequence Send to blast
MALGFRFICF LSRLLILRFL LVVTCMALGL QFVSFYSWAL VRVSDRVSPL FPEDSLYFAI 60 FHGLKGFAMA DASASPGSPE SPNSGEQSPH SNVREQDRFL PIANISRIMK KALPPNGKIA 120 KDAKETVQEC VSEFISFITS EASDKCQREK RKTINGDDLL WAMSTLGFED YIDPLKVYLQ 180 MYREMEGDSK GTKGGDQSAK KESAGVQAGS STQQVSHQGS FNQGMNYMRS QHVYFDVLKI 240 LTNEMNID*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4awl_B	2e-46	94	184	4	94	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT BETA
4csr_A	2e-46	94	184	4	94	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT BETA
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Component of the NF-Y/HAP transcription factor complex. The NF-Y complex stimulates the transcription of various genes by recognizing and binding to a CCAAT motif in promoters.

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	KR232273	1e-35	KR232273.1 Vernicia fordii nuclear transcription factor Y subunit B-5 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_011622921.1	1e-118	nuclear transcription factor Y subunit B-1
Refseq	XP_011622922.1	1e-118	nuclear transcription factor Y subunit B-1
Refseq	XP_011622923.1	1e-118	nuclear transcription factor Y subunit B-1
Refseq	XP_020522171.1	1e-118	nuclear transcription factor Y subunit B-1
Swissprot	P25209	2e-73	NFYB_MAIZE; Nuclear transcription factor Y subunit B
TrEMBL	W1PCW5	0.0	W1PCW5_AMBTC; Uncharacterized protein
STRING	ERN04890	0.0	(Amborella trichopoda)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Representative plant	OGRP168	17	170

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G53340.1	3e-73	nuclear factor Y, subunit B10

Link Out ? help Back to Top
Phytozome	evm_27.model.AmTr_v1.0_scaffold00080.3

Publications ? help Back to Top
Li XY, et al. Evolutionary variation of the CCAAT-binding transcription factor NF-Y. Nucleic Acids Res., 1992. 20(5): p. 1087-91 [PMID:1549471] Amborella Genome Project The Amborella genome and the evolution of flowering plants. Science, 2013. 342(6165): p. 1241089 [PMID:24357323]