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.002G241500.1.p

Common Name

Sb02g027870, SORBIDRAFT_02g027870

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-YC

Protein Properties

Length: 203aa MW: 21421.4 Da PI: 5.2621

Description

NF-YC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sobic.002G241500.1.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	169.7	3.4e-53	60	163	1	101
NF-YC 1 qlksfwekq...iekatdfknhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrt 86 ql++fw++q ie +tdfknh+lPlarikki+kadedv+mi+aeaPv++++ace+filelt r w haeenkrrtl+ksdiaaa++rt Sobic.002G241500.1.p 60 QLQMFWAEQyreIEATTDFKNHNLPLARIKKIMKADEDVRMIAAEAPVVFARACEMFILELTHRGWAHAEENKRRTLQKSDIAAAIART 148 89****99999************************************************************************ PP NF-YC 87 difdflvdivprdel 101 ++fdflvdivprd+ Sobic.002G241500.1.p 149 EVFDFLVDIVPRDDA 163 **********986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47113	6.87E-32	25	154	IPR009072	Histone-fold
Pfam	PF00808	3.7E-21	82	145	IPR003958	Transcription factor CBF/NF-Y/archaeal histone domain
Gene3D	G3DSA:1.10.20.10	1.1E-36	83	160	IPR009072	Histone-fold

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: 203 aa Download sequence Send to blast
MDPSKSSTPP PPPVMGAPVA YPPAAYPPGA AAGAAAYAPQ LYAPPAAAAA QQAAAAQQQQ 60 LQMFWAEQYR EIEATTDFKN HNLPLARIKK IMKADEDVRM IAAEAPVVFA RACEMFILEL 120 THRGWAHAEE NKRRTLQKSD IAAAIARTEV FDFLVDIVPR DDAKDADAAA AAAAAAAAAG 180 IPRPAAGVPA TDPLAYYYVP QQ*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5g49_B	1e-56	68	160	3	95	NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT C-3
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	132	138	RRTLQKS

Functional Description ? help Back to Top
Source	Description
UniProt	Component of the NF-Y/HAP transcription factor complex. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sobic.002G241500.1.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	EU952553	0.0	EU952553.1 Zea mays clone 1283552 nuclear transcription factor Y subunit C-2 mRNA, complete cds.
GenBank	EU962806	0.0	EU962806.1 Zea mays clone 245683 nuclear transcription factor Y subunit C-2 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002460424.1	1e-140	nuclear transcription factor Y subunit C-6
Swissprot	Q9XE33	1e-76	NFYC6_ORYSJ; Nuclear transcription factor Y subunit C-6
TrEMBL	C5X3S1	1e-138	C5X3S1_SORBI; Uncharacterized protein
STRING	Sb02g027870.1	1e-139	(Sorghum bicolor)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP3856	36	76
Representative plant	OGRP315	17	117

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G54830.3	5e-57	nuclear factor Y, subunit C3

Link Out ? help Back to Top
Phytozome	Sobic.002G241500.1.p
Entrez Gene	8055845

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Kim SK, et al. OsNF-YC2 and OsNF-YC4 proteins inhibit flowering under long-day conditions in rice. Planta, 2016. 243(3): p. 563-76 [PMID:26542958]