AP3D_YEAST - dbPTM
AP3D_YEAST - PTM Information in dbPTM
Basic Information of Protein
UniProt ID AP3D_YEAST
UniProt AC Q08951
Protein Name AP-3 complex subunit delta
Gene Name APL5
Organism Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast).
Sequence Length 932
Subcellular Localization Golgi apparatus . Cytoplasmic vesicle, clathrin-coated vesicle membrane
Peripheral membrane protein
Cytoplasmic side . Component of the coat surrounding the cytoplasmic face of coated vesicles located at the Golgi complex.
Protein Description Part of the AP-3 complex, an adaptor-related complex which is not clathrin-associated. The complex is associated with the Golgi region as well as more peripheral structures. It facilitates the budding of vesicles from the Golgi membrane and may be directly involved in trafficking to the vacuole. Required for the transport via the ALP pathway, which directs the transport of the cargo proteins PHO8 and VAM3 to the vacuole..
Protein Sequence MTSLYAPGAEDIRQRLRPFGFFFEKSLKDLIKGIRSHNETPEKLDQFFKQVLSECREEVNSPDLNSKTNAVLKLTYLEMYGFDMAWCNFHILEVMSSNKLQQKRVGYLAASQSFYKDSDILMLATNLLKKDLKYDGNNDVVKVGIALSGLSTIITPSLARDIADDLFTMLNSTRPYIRKKAITALFKVFLQYPEALRDNFDKFVSKLDDDDISVVSAAVSVICELSKKNPQPFIQLSPLLYEILVTIDNNWIIIRLLKLFTNLSQVEPKLRAKLLPKILELMESTVATSVIYESVNCIVKGNMLEEDDFETAMACLERLHTFCDSQDPNLRYISCILFYKIGKINTDFISRFDQLIIRLLSDVDVSIRSKAIELVEGIVDEDNLKAIVQTLMKQFVDEDVVILQTGSIVYEKSKRIPIIIPENYKIKMVNVIISICSADNYSSVNDFEWYNAVIMDLAMLCQDISDKSLGSKIGEQFRNLMIKVPSMREVTIANIIKLISNDNINKQLPTVLRECIWCLGEFSTLVENGNDLIKIMTENISYYSHSVQEVLILALVKVFSNWCNNFQEDKRFEIKMVLKELIEFFENLSYSSTFEVQERSVEVLEFLRLSLEALEEDTEGLPMLLSEVLPSFFNAYELAPIARGTQLKLAVDENLDLETPFLTKEAADELLDEQKSDAISDLMSDISMDEQVELKFVDDSDTSYEEKEKLDDFENPFEIEREKERMSNPYYLGEEDEERTKNSKDLLDLNEEESSDKKPETIRLNRTDNSLNSLSLSTTEISRKKKKGKKKNRVQVLSDEPVIEAAPKRKDAFQKPHDNHSTQNPLKKDKINLRMHSQLENFDFSNFGQSSNAGRGSQEEGNLRKEDELELSRLEANLIVKDEKDNLSDTEEVIVIKKKKKGKKSKSKNKLKTKAKNSPEPNEFLRDQSTDI
Overview of Protein Modification Sites with Functional and Structural Information
Experimental Post-Translational Modification Sites

* ASA = Accessible Surface Area

Locations Modification Substrate Peptides
&
Secondary Structure		 ASA (%) Reference Orthologous
Protein Cluster
2Acetylation------MTSLYAPGA
------CCCCCCCCH		27.6922814378
2Phosphorylation------MTSLYAPGA
------CCCCCCCCH		27.6924961812
3Phosphorylation-----MTSLYAPGAE
-----CCCCCCCCHH		20.3424961812
28AcetylationFFFEKSLKDLIKGIR
HHHHHHHHHHHHHHH		58.5424489116
32AcetylationKSLKDLIKGIRSHNE
HHHHHHHHHHHHCCC		56.4324489116
43AcetylationSHNETPEKLDQFFKQ
HCCCCHHHHHHHHHH		59.5824489116
506UbiquitinationISNDNINKQLPTVLR
HHCCCHHHHHHHHHH		49.7924961812
676PhosphorylationELLDEQKSDAISDLM
HHHHHHHHHHHHHHH		31.7821440633
680PhosphorylationEQKSDAISDLMSDIS
HHHHHHHHHHHHCCC		26.8119795423
684PhosphorylationDAISDLMSDISMDEQ
HHHHHHHHCCCCCCC		38.8021440633
687PhosphorylationSDLMSDISMDEQVEL
HHHHHCCCCCCCEEE		25.7719795423
700PhosphorylationELKFVDDSDTSYEEK
EEEECCCCCCCHHHH		38.0222369663
702PhosphorylationKFVDDSDTSYEEKEK
EECCCCCCCHHHHHC		36.8425521595
703PhosphorylationFVDDSDTSYEEKEKL
ECCCCCCCHHHHHCC		35.2222369663
704PhosphorylationVDDSDTSYEEKEKLD
CCCCCCCHHHHHCCC		30.1425521595
709UbiquitinationTSYEEKEKLDDFENP
CCHHHHHCCCCCCCC		69.1824961812
727PhosphorylationEREKERMSNPYYLGE
HHHHHHCCCCCCCCH		40.6521440633
740PhosphorylationGEEDEERTKNSKDLL
CHHHHHHCCCHHHHH		37.5529136822
743PhosphorylationDEERTKNSKDLLDLN
HHHHCCCHHHHHCCC		29.1521440633
754PhosphorylationLDLNEEESSDKKPET
HCCCCCCCCCCCCCE		47.3022369663
755PhosphorylationDLNEEESSDKKPETI
CCCCCCCCCCCCCEE		57.6422369663
758AcetylationEEESSDKKPETIRLN
CCCCCCCCCCEEEEC		53.7424489116
761PhosphorylationSSDKKPETIRLNRTD
CCCCCCCEEEECCCC		21.6629136822
767PhosphorylationETIRLNRTDNSLNSL
CEEEECCCCCCCCCC		38.1622369663
770PhosphorylationRLNRTDNSLNSLSLS
EECCCCCCCCCCCCC		31.5722369663
773PhosphorylationRTDNSLNSLSLSTTE
CCCCCCCCCCCCHHH		25.3222369663
775PhosphorylationDNSLNSLSLSTTEIS
CCCCCCCCCCHHHHH		21.7922369663
777PhosphorylationSLNSLSLSTTEISRK
CCCCCCCCHHHHHHH		29.8822369663
778PhosphorylationLNSLSLSTTEISRKK
CCCCCCCHHHHHHHH		33.4722369663
779PhosphorylationNSLSLSTTEISRKKK
CCCCCCHHHHHHHHC		28.1322369663
782PhosphorylationSLSTTEISRKKKKGK
CCCHHHHHHHHCCCC		31.6422369663
798PhosphorylationKNRVQVLSDEPVIEA
CCCEEECCCCHHHHH		40.8625521595
837PhosphorylationKINLRMHSQLENFDF
HCCCCCHHHHHCCCC		27.4119779198
857PhosphorylationSSNAGRGSQEEGNLR
CCCCCCCCCCCCCCC		32.8128889911
865AcetylationQEEGNLRKEDELELS
CCCCCCCHHHHHHHH		73.0924489116
888PhosphorylationKDEKDNLSDTEEVIV
CCCCCCCCCCCEEEE		49.0622369663
890PhosphorylationEKDNLSDTEEVIVIK
CCCCCCCCCEEEEEE		30.5725521595
918PhosphorylationLKTKAKNSPEPNEFL
HCHHHCCCCCCCHHH		29.9022369663
929PhosphorylationNEFLRDQSTDI----
CHHHHHCCCCC----		32.1322369663
930PhosphorylationEFLRDQSTDI-----
HHHHHCCCCC-----		31.8922369663
Upstream regulatory proteins (kinases for phosphorylation sites, E3 ubiquitin ligases of ubiquitination sites, ...)
Modified Location Modified Residue Modification Type of Upstream Proteins Gene Name of Upstream Proteins UniProt AC of Upstream Proteins Sources

Oops, there are no upstream regulatory protein records of AP3D_YEAST !!
Functions of PTM Sites
Modified Location Modified Residue Modification Function Reference

Oops, there are no descriptions of PTM sites of AP3D_YEAST !!
Disease-associated PTM Sites based on SAP

* Distance = the distance between SAP position and PTM sites.

Modified Location Modification Variant Position
(Distance <= 10) 		Residue Change SAP Related Disease Reference

Oops, there are no SNP-PTM records of AP3D_YEAST !!
Protein-Protein Interaction
Interacting Protein Gene Name Interaction Type PPI Reference Domain-Domain Interactions
AP3B_YEASTAPL6physical
11805826
AP3M_YEASTAPM3physical
11805826
AP3S_YEASTAPS3physical
11805826
CSK2B_YEASTCKB1physical
11805826
VPS41_YEASTVPS41physical
11160821
AP3B_YEASTAPL6physical
10559961
VAM3_YEASTVAM3physical
10559961
VPS41_YEASTVPS41physical
10559961
YRA1_YEASTYRA1physical
16554755
PUS1_YEASTPUS1physical
16554755
AP3B_YEASTAPL6physical
16429126
AP3M_YEASTAPM3physical
16429126
GOSR1_YEASTGOS1genetic
16269340
RGP1_YEASTRGP1genetic
16269340
RIC1_YEASTRIC1genetic
16269340
COG8_YEASTCOG8genetic
16269340
COG6_YEASTCOG6genetic
16269340
TRS20_YEASTTRS20genetic
16269340
ARL3_YEASTARL3genetic
16269340
ARL1_YEASTARL1genetic
16269340
SYS1_YEASTSYS1genetic
16269340
VPS52_YEASTVPS52genetic
16269340
COG5_YEASTCOG5genetic
16269340
ALG5_YEASTALG5genetic
16269340
ATC3_YEASTDRS2genetic
16269340
SWA2_YEASTSWA2genetic
16269340
COG7_YEASTCOG7genetic
16269340
AP3S_YEASTAPS3genetic
16269340
ALG6_YEASTALG6genetic
16269340
GYP1_YEASTGYP1genetic
16269340
AGE2_YEASTAGE2genetic
16269340
MON2_YEASTMON2genetic
16269340
TLG2_YEASTTLG2genetic
16269340
GDA1_YEASTGDA1genetic
16269340
OST3_YEASTOST3genetic
16269340
STV1_YEASTSTV1genetic
16269340
BST1_YEASTBST1genetic
16269340
GIP3_YEASTGIP3genetic
16269340
YMP0_YEASTYMR010Wgenetic
16269340
UBX2_YEASTUBX2genetic
16269340
ALG8_YEASTALG8genetic
16269340
PKR1_YEASTPKR1genetic
16269340
NEM1_YEASTNEM1genetic
16269340
ARF1_YEASTARF1genetic
16269340
CHO2_YEASTCHO2genetic
16269340
COPB2_YEASTSEC27genetic
16269340
VPS10_YEASTPEP1genetic
16269340
RBD2_YEASTRBD2genetic
16269340
KEX1_YEASTKEX1genetic
16269340
GAS1_YEASTGAS1genetic
16269340
SCS3_YEASTSCS3genetic
16269340
UBC6_YEASTUBC6genetic
16269340
GET3_YEASTGET3genetic
16269340
ICE2_YEASTICE2genetic
16269340
PEP5_YEASTPEP5physical
19741093
VPS16_YEASTVPS16physical
19741093
PEP3_YEASTPEP3physical
19741093
VPS33_YEASTVPS33physical
19741093
VAM6_YEASTVAM6physical
19741093
VPS41_YEASTVPS41physical
19741093
VAM3_YEASTVAM3physical
19741093
VAM7_YEASTVAM7physical
19741093
PPB_YEASTPHO8physical
19741093
NYV1_YEASTNYV1physical
19741093
UBX3_YEASTUBX3genetic
20093466
NUM1_YEASTNUM1genetic
20093466
LIC4_YEASTATC1genetic
20093466
SSD1_YEASTSSD1genetic
20093466
PAC11_YEASTPAC11genetic
20093466
MED5_YEASTNUT1genetic
20093466
COG7_YEASTCOG7genetic
20093466
ASK10_YEASTASK10genetic
20093466
LSM1_YEASTLSM1genetic
20093466
LTHAD_YEASTSRY1genetic
20093466
ALAM_YEASTALT1genetic
20093466
VRP1_YEASTVRP1genetic
20093466
VPS9_YEASTVPS9genetic
20093466
COG8_YEASTCOG8genetic
20093466
SOK2_YEASTSOK2genetic
20093466
YM24_YEASTYMR147Wgenetic
20093466
COG6_YEASTCOG6genetic
20093466
OST3_YEASTOST3genetic
20093466
MED1_YEASTMED1genetic
20093466
FAB1_YEASTFAB1genetic
20526336
RTG3_YEASTRTG3genetic
20526336
ATC3_YEASTDRS2genetic
20526336
ARL1_YEASTARL1genetic
20526336
SYS1_YEASTSYS1genetic
20526336
ARL3_YEASTARL3genetic
20526336
TLG2_YEASTTLG2genetic
20526336
PEP8_YEASTPEP8genetic
20526336
SWA2_YEASTSWA2genetic
20526336
COG7_YEASTCOG7genetic
20526336
COG6_YEASTCOG6genetic
20526336
COG5_YEASTCOG5genetic
20526336
COG8_YEASTCOG8genetic
20526336
RIC1_YEASTRIC1genetic
20526336
VPS41_YEASTVPS41physical
21079247
CDK1_YEASTCDC28genetic
27708008
TRS20_YEASTTRS20genetic
27708008
MAK21_YEASTMAK21genetic
27708008
CDC37_YEASTCDC37genetic
27708008
TRS23_YEASTTRS23genetic
27708008
COG3_YEASTCOG3genetic
27708008
CDC4_YEASTCDC4genetic
27708008
DNA2_YEASTDNA2genetic
27708008
KTHY_YEASTCDC8genetic
27708008
RFC2_YEASTRFC2genetic
27708008
TAD3_YEASTTAD3genetic
27708008
AFG2_YEASTAFG2genetic
27708008
BET5_YEASTBET5genetic
27708008
CBF3B_YEASTCEP3genetic
27708008
DCP2_YEASTDCP2genetic
27708008
DED1_YEASTDED1genetic
27708008
PSB5_YEASTPRE2genetic
27708008
BUR1_YEASTSGV1genetic
27708008
OST4_YEASTOST4genetic
27708008
MED5_YEASTNUT1genetic
27708008
GOSR1_YEASTGOS1genetic
27708008
VPS53_YEASTVPS53genetic
27708008
ALAM_YEASTALT1genetic
27708008
VPS9_YEASTVPS9genetic
27708008
Drug and Disease Associations
Kegg Drug
DrugBank
There are no disease associations of PTM sites.
Regulatory Network of AP3D_YEAST

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Related Literatures of Post-Translational Modification
Phosphorylation
ReferencePubMed
"A multidimensional chromatography technology for in-depthphosphoproteome analysis.";
Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H.;
Mol. Cell. Proteomics 7:1389-1396(2008).
Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-684; SER-687; SER-700;THR-702; SER-703; TYR-704; SER-727; SER-755; THR-767; SER-770;SER-777; SER-798; SER-888 AND SER-918, AND MASS SPECTROMETRY.
"Proteome-wide identification of in vivo targets of DNA damagecheckpoint kinases.";
Smolka M.B., Albuquerque C.P., Chen S.H., Zhou H.;
Proc. Natl. Acad. Sci. U.S.A. 104:10364-10369(2007).
Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-700; SER-703; SER-754AND SER-918, AND MASS SPECTROMETRY.
"Large-scale phosphorylation analysis of alpha-factor-arrestedSaccharomyces cerevisiae.";
Li X., Gerber S.A., Rudner A.D., Beausoleil S.A., Haas W., Villen J.,Elias J.E., Gygi S.P.;
J. Proteome Res. 6:1190-1197(2007).
Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-767; SER-888 ANDSER-918, AND MASS SPECTROMETRY.
"Quantitative phosphoproteomics applied to the yeast pheromonesignaling pathway.";
Gruhler A., Olsen J.V., Mohammed S., Mortensen P., Faergeman N.J.,Mann M., Jensen O.N.;
Mol. Cell. Proteomics 4:310-327(2005).
Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-888 AND SER-918, ANDMASS SPECTROMETRY.

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