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.004G254400.1.p

Common Name

Sb04g029340, SORBIDRAFT_04g029340

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-YB

Protein Properties

Length: 198aa MW: 21087.7 Da PI: 8.9201

Description

NF-YB family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.004G254400.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NF-YB	113.9	8.2e-36	44	131	6	93
NF-YB 6 rflPianvsrimkkvlPanakiskdaketvqecvsefisfvtseasdkcqrekrktingddllwalatlGfedyveplkvylkkyrel 93 r+lP+an++r+m++v+P+ akis ak+++++c+ ef++f+++eas+++ +++r+t++++d+ +l lGf+dyv+p+++y+++yre Sobic.004G254400.1.p 44 RVLPMANLVRLMRQVIPKSAKISSRAKDLTHDCALEFVGFLAGEASERATAQHRRTMAPEDFTCSLQALGFDDYVKPMNTYISRYREQ 131 89************************************************************************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.20.10	1.6E-26	43	133	IPR009072	Histone-fold
SuperFamily	SSF47113	3.06E-23	44	133	IPR009072	Histone-fold
Pfam	PF00808	1.7E-13	46	106	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:0046982	Molecular Function	protein heterodimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 198 aa Download sequence Send to blast
MGRKAKQCPA KKKGGREEKA AAPPPPPAEG ASSSDGEGGT GGTRVLPMAN LVRLMRQVIP 60 KSAKISSRAK DLTHDCALEF VGFLAGEASE RATAQHRRTM APEDFTCSLQ ALGFDDYVKP 120 MNTYISRYRE QVNPAGYRGF ARRPPPPPAT VADVTAAPCV SDEETQRRVP RHGEYDDGGS 180 TSVHAPTPSA HTSPDNM*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_A	1e-25	44	130	11	97	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT B-6
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in developing kernels. {ECO:0000269\|PubMed:11971906}.

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. May act through association with MADS-box proteins. May regulate the expression of genes involved in flowering. {ECO:0000269\|PubMed:11971906}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sobic.004G254400.1.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	AC210260	1e-112	AC210260.5 Zea mays BAC clone CH201-44F4 from chromosome 5, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002452626.1	1e-144	nuclear transcription factor Y subunit B-1
Swissprot	Q6Z348	5e-37	NFYB1_ORYSJ; Nuclear transcription factor Y subunit B-1
TrEMBL	C5XZQ8	1e-142	C5XZQ8_SORBI; Uncharacterized protein
STRING	Sb04g029340.1	1e-143	(Sorghum bicolor)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP13659	26	31
Representative plant	OGRP168	17	170

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G47670.2	2e-26	nuclear factor Y, subunit B6

Link Out ? help Back to Top
Phytozome	Sobic.004G254400.1.p
Entrez Gene	8077710