Leaf Senescence DataBase

Basic information

Locus name

AT5G13800

Alias

PPH

Organism

Arabidopsis thaliana

Taxonomic identifier

[NCBI]

Function category

Chlorophyll degradation

Effect for Senescence

promote

Gene Description

Hydrolase, alpha/beta fold family protein

Evidence

Genetic evidence:Mutant [Ref 1]

References

1: Schelbert S, Aubry S, Burla B, Agne B, Kessler F, Krupinska K, H_rtensteiner S
Pheophytin pheophorbide hydrolase (pheophytinase) is involved in chlorophyll breakdown during leaf senescence in Arabidopsis.
Plant Cell 2009 Mar;21(3):767-85

Sequence

Mutant information

Mutated 1
	Mutant name	pph-1
	Mutant/Transgenic	mutant
	Ecotype	Col-0
	Mutagenesis type	T-DNA insertion_knock out

Mutated 2
	Mutant name	35S-PPH-GFP
	Mutant/Transgenic	transgenic
	Ecotype	Col-0
	Mutagenesis type	transgene

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: AT5G13800.1
miRNA: ath-miR390a
miRNA: ath-miR390a
mfe: -30.6 kcal/mol
p-value: 0.011648

position:  525
target 5' C       U              U 3'
           GGUGUUG UUCUUCCUG GCUU
           CCGCGAU AGGGAGGAC CGAA
miRNA  3'                   U      5'

target: AT5G13800.1
miRNA: ath-miR390b
miRNA: ath-miR390b
mfe: -30.6 kcal/mol
p-value: 0.012970

position:  525
target 5' C       U              U 3'
           GGUGUUG UUCUUCCUG GCUU
           CCGCGAU AGGGAGGAC CGAA
miRNA  3'                   U      5'

target: AT5G13800.1
miRNA: ath-miR774
miRNA: ath-miR774
mfe: -26.2 kcal/mol
p-value: 0.012217

position:  1533
target 5' U              C A    U 3'
           GUGGUUAUAUGGGU A ACUA
           UACCGGUAUACCCA U UGGU
miRNA  3' C                     U 5'

target: AT5G13800.2
miRNA: ath-miR390a
miRNA: ath-miR390a
mfe: -30.6 kcal/mol
p-value: 0.010857

position:  427
target 5' C       U              U 3'
           GGUGUUG UUCUUCCUG GCUU
           CCGCGAU AGGGAGGAC CGAA
miRNA  3'                   U      5'

target: AT5G13800.2
miRNA: ath-miR390b
miRNA: ath-miR390b
mfe: -30.6 kcal/mol
p-value: 0.012133

position:  427
target 5' C       U              U 3'
           GGUGUUG UUCUUCCUG GCUU
           CCGCGAU AGGGAGGAC CGAA
miRNA  3'                   U      5'

target: AT5G13800.2
miRNA: ath-miR774
miRNA: ath-miR774
mfe: -26.2 kcal/mol
p-value: 0.011505

position:  1435
target 5' U              C A    U 3'
           GUGGUUAUAUGGGU A ACUA
           UACCGGUAUACCCA U UGGU
miRNA  3' C                     U 5'

Ortholog Group

Ortholog Groups: OG5_149715

Accession	Taxon
NP_196884 ( AT5G13800 )	Arabidopsis thaliana
NP_850815	Arabidopsis thaliana
123169	Chlamydomonas reinhardtii
ACO62405	Micromonas sp. RCC299
NP_001057593	Oryza sativa Japonica Group
e_gw1.01.00.242.1	Ostreococcus tauri
e_gw1.50.99.1	Physcomitrella patens subsp. patens
30221.m002221	Ricinus communis
fgenesh1_pg.C_chr_5000018	Thalassiosira pseudonana CCMP1335
XP_002948057	Volvox carteri f. nagariensis

Cross Link

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PANTHER	PTHR10992	6.8E-297	1	419	No hit	NA
SUPERFAMILY	SSF53474	8.6E-46	91	161	No hit	NA
Pfam	PF12697	4.1E-35	119	404	No hit	NA
SUPERFAMILY	SSF53474	8.6E-46	192	412	No hit	NA

Mutant Image

leaves of pph mutant (SALK_024673C) still exhibited yellowing which is different from previous report by (PubMed ID:19304936)(SALK_000095)