Leaf Senescence DataBase

Basic information

Locus name

AT3G06860

Organism

Arabidopsis thaliana

Taxonomic identifier

[NCBI]

Function category

Lipid/Carbohydrate metabolism:fatty acid catabolism

Effect for Senescence

unclear

Gene Description

Fatty acid multifunctional protein (MFP2).

Evidence

Genomic evidence:microarray data [Ref 1]

References

1: Buchanan-Wollaston V, Page T, Harrison E, Breeze E, Lim PO, Nam HG, Lin JF, Wu SH, Swidzinski J, Ishizaki K, Leaver CJ
Comparative transcriptome analysis reveals significant differences in gene expression and signalling pathways between developmental and dark/starvation-induced senescence in Arabidopsis.
Plant J. 2005 May;42(4):567-85

Gene Ontology

biological process	fatty acid metabolic process metabolic process oxidation-reduction process
molecular function	3-hydroxyacyl-CoA dehydrogenase activity catalytic activity oxidoreductase activity

Pathway

KEGG	map00062 (EC 4.2.1.17) map00071 (EC 5.1.2.3) map00120 (EC 1.1.1.35) map00280 (EC 4.2.1.17) map00281 (EC 4.2.1.17) map00310 (EC 4.2.1.17) map00362 (EC 4.2.1.17) map00380 (EC 4.2.1.17) map00410 (EC 4.2.1.17) map00592 (EC 4.2.1.17) map00623 (EC 1.1.1.35) map00627 (EC 4.2.1.17) map00640 (EC 4.2.1.17) map00650 (EC 5.1.2.3) map00903 (EC 4.2.1.17) map00930 (EC 4.2.1.17)
MetaCyc	PWY-1361 PWY-5109 PWY-5136 PWY-5138 PWY-5789 PWY-6435 PWY-735

Sequence

AT3G06860.1 | Genomic | mRNA | CDS | Protein

Microarray

Sampling

Buchanan-Wollaston V, Page T, Harrison E, Breeze E, Lim PO, Nam HG, Lin JF, Wu SH, Swidzinski J, Ishizaki K, Leaver CJ.
Comparative transcriptome analysis reveals significant differences in gene expression and signalling pathways between developmental and dark/starvation-induced senescence in Arabidopsis.
Plant J. 2005 May;42(4)

Comparation

Legends:
Col: wild type, indicates the ratio of expression in senescing leaves/green leaves.
NahG, coi1 and ein2: indicates the ratio of expression in senescing leaves of mutant/senescing wild type.
D/L: ratio of DARK 5d/control.
CD: Cell Death, ratio of starved cell suspension culture/control.
Genes showing at least 3 fold (ratio) up regulation during leaf senescence.

miRNA Interaction

Details


target: AT3G06860.1 miRNA: ath-miR780 miRNA: ath-miR780 mfe: -27.8 kcal/mol p-value: 0.032609 position: 2217 target 5' A A A U 3' GCC GCUC ACGGUUGU AGG UGG CGAG UGUCGACG UCU miRNA 3' A U A 5'

Ortholog Group

Ortholog Groups: OG5_127588

Accession	Taxon
NP_187342 ( AT3G06860 )	Arabidopsis thaliana
NP_194630	Arabidopsis thaliana
CMR380C	Cyanidioschyzon merolae strain 10D
132158	Chlamydomonas reinhardtii
ACO65308	Micromonas sp. RCC299
NP_001042973	Oryza sativa Japonica Group
NP_001046536	Oryza sativa Japonica Group
NP_001054687	Oryza sativa Japonica Group
fgenesh1_pm.C_Chr_03.0001000088	Ostreococcus tauri
e_gw1.75.86.1	Physcomitrella patens subsp. patens
estExt_Genewise1.C_1650020	Physcomitrella patens subsp. patens
estExt_fgenesh1_pg.C_2830048	Physcomitrella patens subsp. patens
29726.m004067	Ricinus communis
29912.m005496	Ricinus communis
35567.m000014	Ricinus communis
estExt_fgenesh1_pm.C_chr_100011	Thalassiosira pseudonana CCMP1335
estExt_thaps1_ua_kg.C_chr_20331	Thalassiosira pseudonana CCMP1335
XP_002949054	Volvox carteri f. nagariensis
XP_002959988	Volvox carteri f. nagariensis

Cross Link

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PANTHER	PTHR23309	1.8E-277	7	711	No hit	NA
SUPERFAMILY	SSF52096	2.0E-62	11	302	No hit	NA
Pfam	PF00378	1.5E-50	16	207	IPR001753	Crotonase superfamily
ProSitePatterns	PS00166	NA	106	126	IPR018376	Enoyl-CoA hydratase/isomerase, conserved site
SUPERFAMILY	SSF51735	2.8E-53	311	493	No hit	NA
Pfam	PF02737	4.9E-60	314	492	IPR006176	3-hydroxyacyl-CoA dehydrogenase, NAD binding
ProSitePatterns	PS00067	NA	492	516	IPR006180	3-hydroxyacyl-CoA dehydrogenase, conserved site
Pfam	PF00725	4.7E-23	495	588	IPR006108	3-hydroxyacyl-CoA dehydrogenase, C-terminal
SUPERFAMILY	SSF48179	1.4E-24	495	605	IPR008927	6-phosphogluconate dehydrogenase, C-terminal-like
SUPERFAMILY	SSF48179	3.7E-20	622	706	IPR008927	6-phosphogluconate dehydrogenase, C-terminal-like

Subcellular Localization

Localization 1
	Localization	peroxisome
	Evidence	Localization with GFP-fusion protein (GFP:cDNA)
	Pubmed ID	10737809

Localization 2
	Localization	peroxisome
	Evidence	SUBAcon
	Pubmed ID	23180787