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Protein

Glycerophosphodiester phosphodiesterase GDE1

Gene

GDE1

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Glycerophosphocholine glycerophosphodiesterase responsible for the hydrolysis of intracellular glycerophosphocholine into glycerol-phosphate and choline. The choline is used for phosphatidyl-choline synthesis. Required for utilization of glycerophosphocholine as phosphate source.2 Publications

Catalytic activityi

A glycerophosphodiester + H2O = an alcohol + sn-glycerol 3-phosphate.

GO - Molecular functioni

  • glycerophosphocholine phosphodiesterase activity Source: SGD
  • glycerophosphodiester phosphodiesterase activity Source: GO_Central

GO - Biological processi

  • cellular phosphate ion homeostasis Source: GO_Central
  • glycerophospholipid catabolic process Source: SGD
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Enzyme and pathway databases

BioCyciMetaCyc:G3O-34012-MONOMER.
YEAST:G3O-34012-MONOMER.

Chemistry

SwissLipidsiSLP:000000074.

Names & Taxonomyi

Protein namesi
Recommended name:
Glycerophosphodiester phosphodiesterase GDE1 (EC:3.1.4.46)
Gene namesi
Name:GDE1
Ordered Locus Names:YPL110C
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XVI

Organism-specific databases

EuPathDBiFungiDB:YPL110C.
SGDiS000006031. GDE1.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 12231223Glycerophosphodiester phosphodiesterase GDE1PRO_0000233009Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei653 – 6531PhosphoserineCombined sources
Modified residuei983 – 9831PhosphoserineCombined sources

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiQ02979.

PTM databases

iPTMnetiQ02979.

Interactioni

Protein-protein interaction databases

BioGridi36071. 39 interactions.
DIPiDIP-8774N.
IntActiQ02979. 2 interactions.
MINTiMINT-394412.

Structurei

3D structure databases

ProteinModelPortaliQ02979.
SMRiQ02979. Positions 429-655, 872-933.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1 – 213213SPXPROSITE-ProRule annotationAdd
BLAST
Repeati427 – 45630ANK 1Add
BLAST
Repeati472 – 50231ANK 2Add
BLAST
Repeati504 – 53330ANK 3Add
BLAST
Repeati538 – 56730ANK 4Add
BLAST
Repeati572 – 60130ANK 5Add
BLAST
Repeati605 – 63430ANK 6Add
BLAST
Domaini872 – 1217346GP-PDEAdd
BLAST

Sequence similaritiesi

Belongs to the GDE1 family.Curated
Contains 6 ANK repeats.PROSITE-ProRule annotation
Contains 1 GP-PDE domain.Curated
Contains 1 SPX domain.PROSITE-ProRule annotation

Keywords - Domaini

ANK repeat, Repeat

Phylogenomic databases

GeneTreeiENSGT00440000033970.
HOGENOMiHOG000175901.
InParanoidiQ02979.
KOiK18696.
OMAiIELKYPM.
OrthoDBiEOG092C3FFX.

Family and domain databases

Gene3Di1.25.40.20. 1 hit.
3.20.20.190. 2 hits.
InterProiIPR002110. Ankyrin_rpt.
IPR020683. Ankyrin_rpt-contain_dom.
IPR033506. Gde1.
IPR030395. GP_PDE_dom.
IPR017946. PLC-like_Pdiesterase_TIM-brl.
IPR000909. PLipase_C_PInositol-sp_X_dom.
IPR004331. SPX_dom.
[Graphical view]
PANTHERiPTHR22958:SF1. PTHR22958:SF1. 2 hits.
PfamiPF12796. Ank_2. 1 hit.
PF03009. GDPD. 1 hit.
PF03105. SPX. 2 hits.
[Graphical view]
SMARTiSM00248. ANK. 7 hits.
[Graphical view]
SUPFAMiSSF48403. SSF48403. 1 hit.
SSF51695. SSF51695. 2 hits.
PROSITEiPS50297. ANK_REP_REGION. 1 hit.
PS50088. ANK_REPEAT. 2 hits.
PS51704. GP_PDE. 1 hit.
PS51382. SPX. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q02979-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKFGKTFANH RIPEWSSQYV GYKSLKKMIK EITRLQEDIY RAHNKNSYDE
60 70 80 90 100
GRPPTKMRDS SNSAQNYLDS PKIQKLLASF FFAVDRDIEK VDTFYNSQYA
110 120 130 140 150
EYKKRFERLL SSNQFNEIKS TLVVDANKED AVAQTLLTKD TREMNMLLKG
160 170 180 190 200
TSQASRLSYH KDDLIEIQSI LAELRKQFRN LKWYAELNKR AFGKILKKLD
210 220 230 240 250
KKVGTNQQMS TMKTRILPLQ FANDSLITKD LSLLKTIWEQ VTFRINSYER
260 270 280 290 300
VMRSTSPNAN ANDNTEFFKI ICVFIEEDDS KGLIRELTNL YSELSLIPTR
310 320 330 340 350
IMISVLNKAA LSKSLACIDA ILKVIPSLND SEDINRRNFF HHHIIAIGKL
360 370 380 390 400
IRKQEILSRK KKSQPSKYTN SEGEIVTDLR TLHTTLSAPA ESDSITEEEK
410 420 430 440 450
SSACTLSYIL EELPIHLRPC LFQHDNYKRT PLHYSCQYGL SEVTKLIIKL
460 470 480 490 500
MKEWNIWNEI PIDDVSAFGD AESLTPLHLC VLGAHPKTTE VLLQSLDPNV
510 520 530 540 550
KLKSSSLLHL ATEWNNYPLL HVLLSSKRFD INYQDNELHE TPLYLACRLN
560 570 580 590 600
FFEAAVCLLY NGADLEIREK LFGWTAIFVA AAEGFTDIVK LLIANNANFD
610 620 630 640 650
IEDEGGWTPM EHAVLRGHLH IADMVQIRDE LVTHPHSQLN SGSEEKEPLN
660 670 680 690 700
EISAGELNER NENGNGGNKG SLGKLAGPIK SYGHRFLDNN ESLILITLGS
710 720 730 740 750
NDTRNKSPSI SLSSEALAKV IGLETDCALS LVISCNDSID KSSVILDLPL
760 770 780 790 800
DDNVDAVDFK VPFKVDYSHT LYFDIVPTYG TRSLETHNRI DCQKNNNNYV
810 820 830 840 850
MARGVSMLNK SYSSVGVNRS ILNGSVTVPI IANHTLEILG TLKFEYIIIT
860 870 880 890 900
PFEHPQLPLE RTETYWKSLV STRVIGHRGL GKNNPNKSLQ IGENTVESFI
910 920 930 940 950
MAASLGASYV EFDVQLTKDN VPVVYHDFLV AETGVDIPMH ELTLEQFLDL
960 970 980 990 1000
NNADKEHIQR GAGHSPHHVN GADTALQKYR GRSVDDSDVS TLRRAWDLHD
1010 1020 1030 1040 1050
NDPNGKSNNA HWSDNRMRLT KTFKKNNFKG NARGHSIASS FVTLKELFKK
1060 1070 1080 1090 1100
IPANVGFNIE CKFPMLDEAE EEELGQIMME MNHWVDTVLK VVFDNANGRD
1110 1120 1130 1140 1150
IIFSSFHPDI CIMLSLKQPV IPILFLTEGG SEQMADLRAS SLQNGIRFAK
1160 1170 1180 1190 1200
KWNLLGIVSA AAPILKAPRL VQVVKSNGLV CVTYGVDNND PENASIQIEA
1210 1220
GVDAVIVDSV LAIRRGLTKK NEK
Length:1,223
Mass (Da):138,014
Last modified:November 1, 1996 - v1
Checksum:iC42E74B3CB7FB382
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U43503 Genomic DNA. Translation: AAB68251.1.
BK006949 Genomic DNA. Translation: DAA11323.1.
PIRiS62011.
RefSeqiNP_015215.1. NM_001183924.1.

Genome annotation databases

EnsemblFungiiYPL110C; YPL110C; YPL110C.
GeneIDi855994.
KEGGisce:YPL110C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U43503 Genomic DNA. Translation: AAB68251.1.
BK006949 Genomic DNA. Translation: DAA11323.1.
PIRiS62011.
RefSeqiNP_015215.1. NM_001183924.1.

3D structure databases

ProteinModelPortaliQ02979.
SMRiQ02979. Positions 429-655, 872-933.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi36071. 39 interactions.
DIPiDIP-8774N.
IntActiQ02979. 2 interactions.
MINTiMINT-394412.

Chemistry

SwissLipidsiSLP:000000074.

PTM databases

iPTMnetiQ02979.

Proteomic databases

MaxQBiQ02979.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYPL110C; YPL110C; YPL110C.
GeneIDi855994.
KEGGisce:YPL110C.

Organism-specific databases

EuPathDBiFungiDB:YPL110C.
SGDiS000006031. GDE1.

Phylogenomic databases

GeneTreeiENSGT00440000033970.
HOGENOMiHOG000175901.
InParanoidiQ02979.
KOiK18696.
OMAiIELKYPM.
OrthoDBiEOG092C3FFX.

Enzyme and pathway databases

BioCyciMetaCyc:G3O-34012-MONOMER.
YEAST:G3O-34012-MONOMER.

Miscellaneous databases

PROiQ02979.

Family and domain databases

Gene3Di1.25.40.20. 1 hit.
3.20.20.190. 2 hits.
InterProiIPR002110. Ankyrin_rpt.
IPR020683. Ankyrin_rpt-contain_dom.
IPR033506. Gde1.
IPR030395. GP_PDE_dom.
IPR017946. PLC-like_Pdiesterase_TIM-brl.
IPR000909. PLipase_C_PInositol-sp_X_dom.
IPR004331. SPX_dom.
[Graphical view]
PANTHERiPTHR22958:SF1. PTHR22958:SF1. 2 hits.
PfamiPF12796. Ank_2. 1 hit.
PF03009. GDPD. 1 hit.
PF03105. SPX. 2 hits.
[Graphical view]
SMARTiSM00248. ANK. 7 hits.
[Graphical view]
SUPFAMiSSF48403. SSF48403. 1 hit.
SSF51695. SSF51695. 2 hits.
PROSITEiPS50297. ANK_REP_REGION. 1 hit.
PS50088. ANK_REPEAT. 2 hits.
PS51704. GP_PDE. 1 hit.
PS51382. SPX. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiGDE1_YEAST
AccessioniPrimary (citable) accession number: Q02979
Secondary accession number(s): D6W3Q7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 18, 2006
Last sequence update: November 1, 1996
Last modified: September 7, 2016
This is version 133 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 2300 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  3. Yeast chromosome XVI
    Yeast (Saccharomyces cerevisiae) chromosome XVI: entries and gene names

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.