AP-3 complex subunit delta - Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

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Q08951 (AP3D_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified May 29, 2013. Version 103. History...

Clusters with 100%, 90%, 50% identity |

Documents (3) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
AP-3 complex subunit delta

Alternative name(s):
Adapter-related protein complex 3 subunit delta
Delta-adaptin 3
Short name=Delta-adaptin

Gene names

Name:	APL5
Synonyms:	YKS4
Ordered Locus Names:	YPL195W

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces ›

Protein attributes

Sequence length	932 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Part of the AP-3 complex, an adapter-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. Ref.4 Ref.5 Ref.6
Subunit structure	Adapter protein complex 3 (AP-3) is a heterotetramer composed of 2 large adaptins (APL5 and APL6), a medium adaptin (APM3) and a small adaptin (APS3). Interacts with VPS41. Ref.6 Ref.7
Subcellular location	Golgi apparatus. Cytoplasmic vesicle › clathrin-coated vesicle membrane; Peripheral membrane protein; Cytoplasmic side. Note: Component of the coat surrounding the cytoplasmic face of coated vesicles located at the Golgi complex. Ref.6 Ref.8
Miscellaneous	Present with 13500 molecules/cell in log phase SD medium.
Sequence similarities	Belongs to the adaptor complexes large subunit family. Contains 12 HEAT repeats.
Sequence caution	The sequence AAA79850.1 differs from that shown. Reason: Frameshift at positions 14 and 133.

Ontologies

Keywords
Biological process	Protein transport Transport
Cellular component	Cytoplasmic vesicle Golgi apparatus Membrane
Domain	Coiled coil Repeat
PTM	Phosphoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	Golgi to vacuole transport Inferred from mutant phenotype Ref.4. Source: SGD protein targeting to vacuole Inferred from mutant phenotype PubMed 17895371. Source: SGD
Cellular_component	AP-3 adaptor complex Inferred from mutant phenotype Ref.5. Source: SGD Golgi apparatus Inferred from electronic annotation. Source: UniProtKB-SubCell clathrin-coated vesicle membrane Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	protein transporter activity Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
APL6	P46682	5	EBI-29702,EBI-2213
APM3	P38153	5	EBI-29702,EBI-2710

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 932

932

AP-3 complex subunit delta

PRO_0000227676

Regions

Repeat

157 – 194

HEAT 1

Repeat

196 – 231

HEAT 2

Repeat

233 – 269

HEAT 3

Repeat

270 – 307

HEAT 4

Repeat

310 – 346

HEAT 5

Repeat

347 – 384

HEAT 6

Repeat

386 – 425

HEAT 7

Repeat

427 – 466

HEAT 8

Repeat

490 – 527

HEAT 9

Repeat

528 – 564

HEAT 10

Repeat

570 – 601

HEAT 11

Repeat

602 – 638

HEAT 12

Coiled coil

858 – 878

Potential

Compositional bias

784 – 791

Poly-Lys

Compositional bias

897 – 916

Poly-Lys

Amino acid modifications

Modified residue

684

Phosphoserine Ref.13

Modified residue

687

Phosphoserine Ref.13

Modified residue

700

Phosphoserine Ref.12 Ref.13

Modified residue

702

Phosphothreonine Ref.13

Modified residue

703

Phosphoserine Ref.12 Ref.13

Modified residue

704

Phosphotyrosine Ref.13

Modified residue

727

Phosphoserine Ref.13

Modified residue

754

Phosphoserine Ref.12

Modified residue

755

Phosphoserine Ref.13

Modified residue

767

Phosphothreonine Ref.11 Ref.13

Modified residue

770

Phosphoserine Ref.13

Modified residue

777

Phosphoserine Ref.13

Modified residue

798

Phosphoserine Ref.13

Modified residue

888

Phosphoserine Ref.10 Ref.11 Ref.13

Modified residue

918

Phosphoserine Ref.10 Ref.11 Ref.12 Ref.13

Sequences

Sequence

Length

Mass (Da)

Tools

Q08951 [UniParc].

Last modified November 1, 1996. Version 1.
Checksum: 51415466FF25CC40
Show »

FASTA

932

106,924

        10         20         30         40         50         60 
MTSLYAPGAE DIRQRLRPFG FFFEKSLKDL IKGIRSHNET PEKLDQFFKQ VLSECREEVN 

        70         80         90        100        110        120 
SPDLNSKTNA VLKLTYLEMY GFDMAWCNFH ILEVMSSNKL QQKRVGYLAA SQSFYKDSDI 

       130        140        150        160        170        180 
LMLATNLLKK DLKYDGNNDV VKVGIALSGL STIITPSLAR DIADDLFTML NSTRPYIRKK 

       190        200        210        220        230        240 
AITALFKVFL QYPEALRDNF DKFVSKLDDD DISVVSAAVS VICELSKKNP QPFIQLSPLL 

       250        260        270        280        290        300 
YEILVTIDNN WIIIRLLKLF TNLSQVEPKL RAKLLPKILE LMESTVATSV IYESVNCIVK 

       310        320        330        340        350        360 
GNMLEEDDFE TAMACLERLH TFCDSQDPNL RYISCILFYK IGKINTDFIS RFDQLIIRLL 

       370        380        390        400        410        420 
SDVDVSIRSK AIELVEGIVD EDNLKAIVQT LMKQFVDEDV VILQTGSIVY EKSKRIPIII 

       430        440        450        460        470        480 
PENYKIKMVN VIISICSADN YSSVNDFEWY NAVIMDLAML CQDISDKSLG SKIGEQFRNL 

       490        500        510        520        530        540 
MIKVPSMREV TIANIIKLIS NDNINKQLPT VLRECIWCLG EFSTLVENGN DLIKIMTENI 

       550        560        570        580        590        600 
SYYSHSVQEV LILALVKVFS NWCNNFQEDK RFEIKMVLKE LIEFFENLSY SSTFEVQERS 

       610        620        630        640        650        660 
VEVLEFLRLS LEALEEDTEG LPMLLSEVLP SFFNAYELAP IARGTQLKLA VDENLDLETP 

       670        680        690        700        710        720 
FLTKEAADEL LDEQKSDAIS DLMSDISMDE QVELKFVDDS DTSYEEKEKL DDFENPFEIE 

       730        740        750        760        770        780 
REKERMSNPY YLGEEDEERT KNSKDLLDLN EEESSDKKPE TIRLNRTDNS LNSLSLSTTE 

       790        800        810        820        830        840 
ISRKKKKGKK KNRVQVLSDE PVIEAAPKRK DAFQKPHDNH STQNPLKKDK INLRMHSQLE 

       850        860        870        880        890        900 
NFDFSNFGQS SNAGRGSQEE GNLRKEDELE LSRLEANLIV KDEKDNLSDT EEVIVIKKKK 

       910        920        930 
KGKKSKSKNK LKTKAKNSPE PNEFLRDQST DI

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome XVI." Bussey H., Storms R.K., Ahmed A., Albermann K., Allen E., Ansorge W., Araujo R., Aparicio A., Barrell B.G., Badcock K., Benes V., Botstein D., Bowman S., Brueckner M., Carpenter J., Cherry J.M., Chung E., Churcher C.M. Hani J. Nature 387:103-105(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972.
[2]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[3]	"Suppressors of loss of yeast casein kinase 1 function define the four subunits of a novel putative adaptin complex." Robinson L.C., Engle H.M., Panek H.R. Submitted (SEP-1995) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 8-932.
[4]	"The AP-3 adaptor complex is essential for cargo-selective transport to the yeast vacuole." Cowles C.R., Odorizzi G., Payne G.S., Emr S.D. Cell 91:109-118(1997) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION OF THE AP-3 COMPLEX, FUNCTION OF THE AP-3 COMPLEX.
[5]	"Suppressors of YCK-encoded yeast casein kinase 1 deficiency define the four subunits of a novel clathrin AP-like complex." Panek H.R., Stepp J.D., Engle H.M., Marks K.M., Tan P.K., Lemmon S.K., Robinson L.C. EMBO J. 16:4194-4204(1997) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION OF THE AP-3 COMPLEX, FUNCTION OF THE AP-3 COMPLEX.
[6]	"Formation of AP-3 transport intermediates requires Vps41 function." Rehling P., Darsow T., Katzmann D.J., Emr S.D. Nat. Cell Biol. 1:346-353(1999) [PubMed] [Europe PMC] [Abstract] Cited for: SUBCELLULAR LOCATION, INTERACTION WITH VPS41, FUNCTION OF THE AP-3 COMPLEX.
[7]	"Vps41p function in the alkaline phosphatase pathway requires homo-oligomerization and interaction with AP-3 through two distinct domains." Darsow T., Katzmann D.J., Cowles C.R., Emr S.D. Mol. Biol. Cell 12:37-51(2001) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH VPS41.
[8]	"Global analysis of protein localization in budding yeast." Huh W.-K., Falvo J.V., Gerke L.C., Carroll A.S., Howson R.W., Weissman J.S., O'Shea E.K. Nature 425:686-691(2003) [PubMed] [Europe PMC] [Abstract] Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
[9]	"Global analysis of protein expression in yeast." Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S. Nature 425:737-741(2003) [PubMed] [Europe PMC] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[10]	"Quantitative phosphoproteomics applied to the yeast pheromone signaling 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) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-888 AND SER-918, MASS SPECTROMETRY. Strain: YAL6B.
[11]	"Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces 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) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-767; SER-888 AND SER-918, MASS SPECTROMETRY. Strain: ADR376.
[12]	"Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases." Smolka M.B., Albuquerque C.P., Chen S.H., Zhou H. Proc. Natl. Acad. Sci. U.S.A. 104:10364-10369(2007) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-700; SER-703; SER-754 AND SER-918, MASS SPECTROMETRY.
[13]	"A multidimensional chromatography technology for in-depth phosphoproteome analysis." Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H. Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed] [Europe PMC] [Abstract] 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, MASS SPECTROMETRY.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	Z73551 Genomic DNA. Translation: CAA97908.1. U36858 Genomic DNA. Translation: AAA79850.1. Frameshift. BK006949 Genomic DNA. Translation: DAA11239.1.
PIR	S65214.
RefSeq	NP_015129.1. NM_001184009.1.
3D structure databases
ProteinModelPortal	Q08951.
SMR	Q08951. Positions 27-568.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-3977N.
IntAct	Q08951. 6 interactions.
MINT	MINT-565984.
Proteomic databases
PaxDb	Q08951.
PeptideAtlas	Q08951.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YPL195W; YPL195W; YPL195W.
GeneID	855906.
KEGG	sce:YPL195W.
Organism-specific databases
CYGD	YPL195w.
SGD	S000006116. APL5.
Phylogenomic databases
eggNOG	NOG285451.
GeneTree	ENSGT00550000075067.
HOGENOM	HOG000000981.
OMA	ASQSFYK.
OrthoDB	EOG4QC4DP.
Enzyme and pathway databases
BioCyc	YEAST:G3O-34088-MONOMER.
Gene expression databases
Genevestigator	Q08951.
GermOnline	YPL195W. Saccharomyces cerevisiae.
Family and domain databases
Gene3D	1.25.10.10. 1 hit.
InterPro	IPR017105. AP3_complex_dsu. IPR011989. ARM-like. IPR016024. ARM-type_fold. IPR002553. Clathrin/coatomer_adapt-like_N. [Graphical view]
Pfam	PF01602. Adaptin_N. 1 hit. [Graphical view]
PIRSF	PIRSF037092. AP3_complex_delta. 1 hit.
SUPFAM	SSF48371. ARM-type_fold. 1 hit.
PROSITE	PS50077. HEAT_REPEAT. False negative. [Graphical view]
ProtoNet	Search...
Other
NextBio	980604.

Entry information

Entry name

AP3D_YEAST

Accession

Primary (citable) accession number: Q08951
Secondary accession number(s): D6W3H3, Q02737, Q7LIB1

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 21, 2006
Last sequence update:	November 1, 1996
Last modified:	May 29, 2013
This is version 103 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program

Relevant documents

Yeast

Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD

Yeast chromosome XVI

Yeast (Saccharomyces cerevisiae) chromosome XVI: entries and gene names

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Sequence annotation (Features)

Molecule processing

Regions

Amino acid modifications

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Gene expression databases

Family and domain databases

Other

Entry information

Relevant documents