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

Neem_1883_f_1

Organism

Azadirachta indica

Taxonomic ID

124943

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta

Family

Dof

Protein Properties

Length: 507aa MW: 55448.1 Da PI: 6.8975

Description

Dof family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Neem_1883_f_1	genome	NGD	View Nucleic Acid

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-Dof	126	1.1e-39	154	214	2	62
zf-Dof 2 kekalkcprCdstntkfCyynnyslsqPryfCkaCrryWtkGGalrnvPvGggrrknkkss 62 ++k+l+cprC+s++tkfCyynny+++qPr+fCkaC+ryWt+GG++rnvPvG+grrknk+s Neem_1883_f_1 154 PDKILPCPRCNSMDTKFCYYNNYNINQPRHFCKACQRYWTAGGTMRNVPVGAGRRKNKNSA 214 7899******************************************************976 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
ProDom	PD007478	2.0E-30	145	211	IPR003851	Zinc finger, Dof-type
Pfam	PF02701	3.1E-32	156	212	IPR003851	Zinc finger, Dof-type
PROSITE profile	PS50884	28.826	158	212	IPR003851	Zinc finger, Dof-type
PROSITE pattern	PS01361	0	160	196	IPR003851	Zinc finger, Dof-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 507 aa Download sequence Send to blast
MQATVNLAKL TALFNCFFVS NRVEGNEKMQ ESKDPAIKLF GKKIAVTSDG EIPVILVDDL 60 PSPAAKEERS SKEAEDEKTE EDSSMVKATD TTQHDDTPPP NIDESTNPEE LAETNVNPKT 120 PSIDDETAKS KAAKSEKSQN DASNSQEKTT LKKPDKILPC PRCNSMDTKF CYYNNYNINQ 180 PRHFCKACQR YWTAGGTMRN VPVGAGRRKN KNSASHYRHI TISEALQAAR IDAPNGISHP 240 NLKSNGRVLS FGVDAPICDS MASVLNLAEK KVLNGTQNGF KEQEVPVPCR GGENGDDCSS 300 TSSITVSNPV EERSRNCIQE PLMRNVNGFP SPVPCLPGVP WPYPWNTAVP PPAFCPSGFP 360 MSFYPATFWN CGVLGTWNMP WFPPSPQSSP NLKGPSSGPN SPTLGKHSRD ADTPKPDNME 420 KEEQPSSREK NGCVLVPKTL RIDDPNEAAK SSIWATLGIK NETISSGRLF KGLQGKSDEK 480 NHMVETSPVL RANPAALSRS LNFHEST

Sequence ? help Back to Top

Protein Sequence Length: 507 aa Download sequence Send to blast

MQATVNLAKL TALFNCFFVS NRVEGNEKMQ ESKDPAIKLF GKKIAVTSDG EIPVILVDDL  60
PSPAAKEERS SKEAEDEKTE EDSSMVKATD TTQHDDTPPP NIDESTNPEE LAETNVNPKT  120
PSIDDETAKS KAAKSEKSQN DASNSQEKTT LKKPDKILPC PRCNSMDTKF CYYNNYNINQ  180
PRHFCKACQR YWTAGGTMRN VPVGAGRRKN KNSASHYRHI TISEALQAAR IDAPNGISHP  240
NLKSNGRVLS FGVDAPICDS MASVLNLAEK KVLNGTQNGF KEQEVPVPCR GGENGDDCSS  300
TSSITVSNPV EERSRNCIQE PLMRNVNGFP SPVPCLPGVP WPYPWNTAVP PPAFCPSGFP  360
MSFYPATFWN CGVLGTWNMP WFPPSPQSSP NLKGPSSGPN SPTLGKHSRD ADTPKPDNME  420
KEEQPSSREK NGCVLVPKTL RIDDPNEAAK SSIWATLGIK NETISSGRLF KGLQGKSDEK  480
NHMVETSPVL RANPAALSRS LNFHEST

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that binds specifically to a 5'-AA[AG]G-3' consensus core sequence (By similarity). Regulates a photoperiodic flowering response. Transcriptional repressor of 'CONSTANS' expression. {ECO:0000250, ECO:0000269\|PubMed:19619493}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00394	DAP	Transfer from AT3G47500	Download

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Circadian-regulation. Highly expressed at the beginning of the light period, then decreases, reaching a minimum between 16 and 29 hours after dawn before rising again at the end of the day. {ECO:0000269\|PubMed:19619493}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006440609.1	0.0	cyclic dof factor 3
Swissprot	Q8LFV3	1e-125	CDF3_ARATH; Cyclic dof factor 3
TrEMBL	V4VM22	0.0	V4VM22_9ROSI; Uncharacterized protein
STRING	XP_006440609.1	0.0	(Citrus clementina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5441	28	48

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G47500.1	1e-122	cycling DOF factor 3

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Corrales AR, et al. Multifaceted role of cycling DOF factor 3 (CDF3) in the regulation of flowering time and abiotic stress responses in Arabidopsis. Plant Cell Environ., 2017. 40(5): p. 748-764 [PMID:28044345] Renau-Morata B, et al. Ectopic Expression of CDF3 Genes in Tomato Enhances Biomass Production and Yield under Salinity Stress Conditions. Front Plant Sci, 2017. 8: p. 660 [PMID:28515731] Henriques R, et al. The antiphasic regulatory module comprising CDF5 and its antisense RNA FLORE links the circadian clock to photoperiodic flowering. New Phytol., 2017. 216(3): p. 854-867 [PMID:28758689]