P52286 (SKP1_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Suppressor of kinetochore protein 1

Alternative name(s):
Centromere DNA-binding protein complex CBF3 subunit D
E3 ubiquitin ligase complex SCF subunit SKP1

Gene names

Name:	SKP1
Synonyms:	CBF3D
Ordered Locus Names:	YDR328C
ORF Names:	D9798.14

Organism

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

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Fungi › Dikarya › Ascomycota › saccharomyceta › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces › Saccharomyces cerevisiae

Protein attributes

Sequence length	194 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Essential component of the E3 ubiquitin ligase complex SCF (SKP1-CUL1-F-box protein) ubiquitin ligase complex, which mediates the ubiquitination and subsequent proteasomal degradation of target proteins like phosphorylated SIC1. Participates in the attachment of chromosomes to the spindle. Acts as a regulatory component of the centromere DNA-binding protein complex CBF3, which is essential for chromosome segregation and movement of centromeres along microtubules. CBF3 is required for the recruitment of other kinetochore complexes to CEN DNA. It plays a role in the attachment of chromosomes to the spindle and binds selectively to a highly conserved DNA sequence called CDEIII, found in centromeres and in several promoters. The association of CBF3C with CBF3D and SGT1 is required for CBF3C activation and CBF3 assembly. SKP1/CBF3D could retrieve cyclins or cyclin-CDK-like proteins into the kinetochore thus providing cell cycle-regulated kinetochore activity. Involved in the regulation of methionine biosynthesis genes. Facilitates association of CDC53 with CDC4 and of ROY1 with YPT52. Ref.1 Ref.2 Ref.7 Ref.8 Ref.9 Ref.10 Ref.19
Pathway	Protein modification; protein ubiquitination.
Subunit structure	Component of the E3 ubiquitin ligase complexes SCF with HRT1, some cullins like CDC53, and some F-box proteins like MET30 CDC4 and SAF1. Interacts with CDC53 and MET30 to form the E3 ubiquitin ligase complex SCF(Met30) which also contains MET4. Forms complex SCF(Cdc4) together with CDC4 and CDC53. Component of the CBF3 complex, which is formed of CBF3A/CBF2, CBF3B/CEP3, CBF3C/CTF13 and CBF3D. Component of the RAVE complex composed of RAV1, RAV2 and SKP1/CBF3D. Interacts with RCY1, ROY1, CBF3D and SGT1. Ref.2 Ref.7 Ref.8 Ref.9 Ref.10 Ref.11 Ref.12 Ref.13 Ref.17 Ref.18 Ref.19
Subcellular location	Cytoplasm. Nucleus. Chromosome › centromere › kinetochore Ref.16.
Sequence similarities	Belongs to the SKP1 family.

Ontologies

Keywords
Biological process	Ubl conjugation pathway
Cellular component	Centromere Chromosome Cytoplasm Kinetochore Nucleus
Ligand	DNA-binding
PTM	Phosphoprotein
Technical term	3D-structure Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological_process	G1/S transition of mitotic cell cycle Inferred from mutant phenotype Ref.2Ref.1. Source: SGD G2/M transition of mitotic cell cycle Inferred from mutant phenotype Ref.2Ref.1. Source: SGD SCF-dependent proteasomal ubiquitin-dependent protein catabolic process Inferred from direct assay Ref.7Ref.8. Source: SGD cytokinesis Inferred from mutant phenotype PubMed 17205042. Source: SGD kinetochore assembly Inferred from direct assay PubMed 12084919. Source: SGD protein neddylation Inferred from mutant phenotype PubMed 9531531. Source: SGD protein ubiquitination involved in ubiquitin-dependent protein catabolic process Inferred from direct assay Ref.7Ref.8. Source: SGD regulation of exit from mitosis Inferred from mutant phenotype PubMed 17205042. Source: SGD regulation of protein complex assembly Inferred from physical interaction Ref.13. Source: SGD septin ring assembly Inferred from mutant phenotype PubMed 16330709. Source: SGD vacuolar acidification Inferred from mutant phenotype Ref.13. Source: SGD
Cellular_component	CBF3 complex Inferred from direct assay Ref.6Ref.1. Source: SGD RAVE complex Inferred from physical interaction Ref.13PubMed 11844802. Source: SGD SCF ubiquitin ligase complex Inferred from direct assay Ref.7Ref.8. Source: SGD condensed chromosome kinetochore Inferred from electronic annotation. Source: UniProtKB-SubCell kinetochore Traceable author statement PubMed 12769845. Source: SGD nucleus Inferred from direct assay PubMed 11080155. Source: SGD
Molecular_function	DNA replication origin binding Inferred from physical interaction PubMed 16421250. Source: SGD
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
BOP2	Q06150	3	EBI-4090,EBI-34293
CDC4	P07834	12	EBI-4090,EBI-4434
CDC53	Q12018	15	EBI-4090,EBI-4321
COS111	P38308	2	EBI-4090,EBI-20947
CTF13	P35203	7	EBI-4090,EBI-4085
EFT2	P32324	2	EBI-4090,EBI-6333
GRR1	P24814	9	EBI-4090,EBI-7898
MDM30	Q05930	3	EBI-4090,EBI-31799
MET30	P39014	14	EBI-4090,EBI-11507
RAV1	P47104	5	EBI-4090,EBI-25471
ROY1	Q04847	4	EBI-4090,EBI-27556
SAF1	P38352	4	EBI-4090,EBI-21172
SGT1	Q08446	7	EBI-4090,EBI-17070
UFO1	Q04511	4	EBI-4090,EBI-20020
YDR131C	Q03899	3	EBI-4090,EBI-36201
YLR352W	Q06479	4	EBI-4090,EBI-35627

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Initiator methionine

1

1

Removed Ref.6

Chain

2 – 194

193

Suppressor of kinetochore protein 1

PRO_0000187257

Regions

Region

135 – 194

60

Interaction with the F-box domain of F-box proteins By similarity

Compositional bias

66 – 74

9

Asp/Glu-rich (highly acidic)

Amino acid modifications

Modified residue

4

1

Phosphoserine Ref.14

Modified residue

177

1

Phosphothreonine Ref.14

Experimental info

Sequence conflict

48

1

E → D in AAC49492. Ref.2

Secondary structure

1

.

.

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194

Helix Strand Turn

Details...

Beta strand

5 – 9

5

Beta strand

15 – 19

5

Helix

20 – 23

4

Helix

27 – 34

8

Beta strand

76 – 78

3

Helix

84 – 96

13

Turn

97 – 99

3

Helix

118 – 123

6

Helix

128 – 140

13

Helix

144 – 158

15

Helix

163 – 170

8

Helix

178 – 185

8

Sequences

	Sequence		Length	Mass (Da)
	P52286 [UniParc]. Last modified January 23, 2007. Version 2. Checksum: 746DDE6470A69432	FASTA	194	22,330
	10 20 30 40 50 60 MVTSNVVLVS GEGERFTVDK KIAERSLLLK NYLNDMHDSN LQNNSDSESD SDSETNHKSK 70 80 90 100 110 120 DNNNGDDDDE DDDEIVMPVP NVRSSVLQKV IEWAEHHRDS NFPDEDDDDS RKSAPVDSWD 130 140 150 160 170 180 REFLKVDQEM LYEIILAANY LNIKPLLDAG CKVVAEMIRG RSPEEIRRTF NIVNDFTPEE 190 EAAIRRENEW AEDR

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Budding yeast SKP1 encodes an evolutionarily conserved kinetochore protein required for cell cycle progression." Connelly C., Hieter P. Cell 86:275-285(1996) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], FUNCTION. Strain: ATCC 204508 / S288c.
[2]	"SKP1 connects cell cycle regulators to the ubiquitin proteolysis machinery through a novel motif, the F-box." Bai C., Sen P., Hofmann K., Ma L., Goebl M., Harper J.W., Elledge S.J. Cell 86:263-274(1996) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, INTERACTION WITH CDC4. Strain: ATCC 204508 / S288c.
[3]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome IV." Jacq C., Alt-Moerbe J., Andre B., Arnold W., Bahr A., Ballesta J.P.G., Bargues M., Baron L., Becker A., Biteau N., Bloecker H., Blugeon C., Boskovic J., Brandt P., Brueckner M., Buitrago M.J., Coster F., Delaveau T. , del Rey F., Dujon B., Eide L.G., Garcia-Cantalejo J.M., Goffeau A., Gomez-Peris A., Granotier C., Hanemann V., Hankeln T., Hoheisel J.D., Jaeger W., Jimenez A., Jonniaux J.-L., Kraemer C., Kuester H., Laamanen P., Legros Y., Louis E.J., Moeller-Rieker S., Monnet A., Moro M., Mueller-Auer S., Nussbaumer B., Paricio N., Paulin L., Perea J., Perez-Alonso M., Perez-Ortin J.E., Pohl T.M., Prydz H., Purnelle B., Rasmussen S.W., Remacha M.A., Revuelta J.L., Rieger M., Salom D., Saluz H.P., Saiz J.E., Saren A.-M., Schaefer M., Scharfe M., Schmidt E.R., Schneider C., Scholler P., Schwarz S., Soler-Mira A., Urrestarazu L.A., Verhasselt P., Vissers S., Voet M., Volckaert G., Wagner G., Wambutt R., Wedler E., Wedler H., Woelfl S., Harris D.E., Bowman S., Brown D., Churcher C.M., Connor R., Dedman K., Gentles S., Hamlin N., Hunt S., Jones L., McDonald S., Murphy L.D., Niblett D., Odell C., Oliver K., Rajandream M.A., Richards C., Shore L., Walsh S.V., Barrell B.G., Dietrich F.S., Mulligan J.T., Allen E., Araujo R., Aviles E., Berno A., Carpenter J., Chen E., Cherry J.M., Chung E., Duncan M., Hunicke-Smith S., Hyman R.W., Komp C., Lashkari D., Lew H., Lin D., Mosedale D., Nakahara K., Namath A., Oefner P., Oh C., Petel F.X., Roberts D., Schramm S., Schroeder M., Shogren T., Shroff N., Winant A., Yelton M.A., Botstein D., Davis R.W., Johnston M., Andrews S., Brinkman R., Cooper J., Ding H., Du Z., Favello A., Fulton L., Gattung S., Greco T., Hallsworth K., Hawkins J., Hillier L.W., Jier M., Johnson D., Johnston L., Kirsten J., Kucaba T., Langston Y., Latreille P., Le T., Mardis E., Menezes S., Miller N., Nhan M., Pauley A., Peluso D., Rifkin L., Riles L., Taich A., Trevaskis E., Vignati D., Wilcox L., Wohldman P., Vaudin M., Wilson R., Waterston R., Albermann K., Hani J., Heumann K., Kleine K., Mewes H.-W., Zollner A., Zaccaria P. Nature 387:75-78(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[4]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[5]	"Approaching a complete repository of sequence-verified protein-encoding clones for Saccharomyces cerevisiae." Hu Y., Rolfs A., Bhullar B., Murthy T.V.S., Zhu C., Berger M.F., Camargo A.A., Kelley F., McCarron S., Jepson D., Richardson A., Raphael J., Moreira D., Taycher E., Zuo D., Mohr S., Kane M.F., Williamson J. , Simpson A.J.G., Bulyk M.L., Harlow E., Marsischky G., Kolodner R.D., LaBaer J. Genome Res. 17:536-543(2007) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[6]	"The Saccharomyces cerevisiae kinetochore contains a cyclin-CDK complexing homologue, as identified by in vitro reconstitution." Stemmann O., Lechner J. EMBO J. 15:3611-3620(1996) [PubMed] [Europe PMC] [Abstract] Cited for: PROTEIN SEQUENCE OF 2-24, CHARACTERIZATION.
[7]	"F-box proteins are receptors that recruit phosphorylated substrates to the SCF ubiquitin-ligase complex." Skowyra D., Craig K.L., Tyers M., Elledge S.J., Harper J.W. Cell 91:209-219(1997) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, SUBUNIT.
[8]	"A complex of Cdc4p, Skp1p, and Cdc53p/cullin catalyzes ubiquitination of the phosphorylated CDK inhibitor Sic1p." Feldman R.M., Correll C.C., Kaplan K.B., Deshaies R.J. Cell 91:221-230(1997) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, SUBUNIT.
[9]	"Non-SCF-type F-box protein Roy1/Ymr258c interacts with a Rab5-like GTPase Ypt52 and inhibits Ypt52 function." Liu Y., Nakatsukasa K., Kotera M., Kanada A., Nishimura T., Kishi T., Mimura S., Kamura T. Mol. Biol. Cell 22:1575-1584(2011) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, INTERACTION WITH ROY1.
[10]	"Cdc53 is a scaffold protein for multiple Cdc34/Skp1/F-box protein complexes that regulate cell division and methionine biosynthesis in yeast." Patton E.E., Willems A.R., Sa D., Kuras L., Thomas D., Craig K.L., Tyers M. Genes Dev. 12:692-705(1998) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, INTERACTION WITH MET30 AND CDC53.
[11]	"Feedback-regulated degradation of the transcriptional activator Met4 is triggered by the SCF(Met30) complex." Rouillon A., Barbey R., Patton E.E., Tyers M., Thomas D. EMBO J. 19:282-294(2000) [PubMed] [Europe PMC] [Abstract] Cited for: SUBUNIT.
[12]	"Skp1p and the F-box protein Rcy1p form a non-SCF complex involved in recycling of the SNARE Snc1p in yeast." Galan J.M., Wiederkehr A., Seol J.H., Haguenauer-Tsapis R., Deshaies R.J., Riezman H., Peter M. Mol. Cell. Biol. 21:3105-3117(2001) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH RCY1.
[13]	"Skp1 forms multiple protein complexes, including RAVE, a regulator of V-ATPase assembly." Seol J.H., Shevchenko A., Shevchenko A., Deshaies R.J. Nat. Cell Biol. 3:384-391(2001) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION IN THE RAVE COMPLEX WITH RAV1 AND RAV2.
[14]	"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-4 AND THR-177, MASS SPECTROMETRY.
[15]	"Structural basis for phosphodependent substrate selection and orientation by the SCFCdc4 ubiquitin ligase." Orlicky S., Tang X., Willems A., Tyers M., Sicheri F. Cell 112:243-256(2003) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.7 ANGSTROMS) OF 7-166.
[16]	"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].
[17]	"The amino-terminal portion of the F-box protein Met30p mediates its nuclear import and assimilation into an SCF complex." Brunson L.E., Dixon C., Kozubowski L., Mathias N. J. Biol. Chem. 279:6674-6682(2004) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH MET30.
[18]	"Sgt1p and Skp1p modulate the assembly and turnover of CBF3 complexes required for proper kinetochore function." Rodrigo-Brenni M.C., Thomas S., Bouck D.C., Kaplan K.B. Mol. Biol. Cell 15:3366-3378(2004) [PubMed] [Europe PMC] [Abstract] Cited for: ASSEMBLY OF THE CBF3 COMPLEX, INTERACTION WITH CBF3C AND SGT1.
[19]	"Skp1-Cullin-F-box-dependent degradation of Aah1p requires its interaction with the F-box protein Saf1p." Escusa S., Laporte D., Massoni A., Boucherie H., Dautant A., Daignan-Fornier B. J. Biol. Chem. 282:20097-20103(2007) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, IDENTIFICATION IN THE SCF(SAF1) COMPLEX.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

U43179 Genomic DNA. Translation: AAB17500.1.
U61764 mRNA. Translation: AAC49492.1.
U32517 Genomic DNA. Translation: AAB64763.1.
AY557730 Genomic DNA. Translation: AAS56056.1.
BK006938 Genomic DNA. Translation: DAA12170.1.

PIR

S59793.

RefSeq

NP_010615.3. NM_001180636.3.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1NEX	X-ray	2.70	A/C	1-194	[»]
3MKS	X-ray	2.60	A/C	2-194	[»]
3V7D	X-ray	2.31	A/C	1-194	[»]

ProteinModelPortal

P52286.

SMR

P52286. Positions 4-188.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-1236N.

IntAct

P52286. 75 interactions.

MINT

MINT-384072.

STRING

4932.YDR328C.

Proteomic databases

PaxDb

P52286.

PeptideAtlas

P52286.

PRIDE

P52286.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblFungi

YDR328C; YDR328C; YDR328C.

GeneID

851928.

KEGG

sce:YDR328C.
sce:YDR332W.

Organism-specific databases

SGD

S000002736. SKP1.

Phylogenomic databases

eggNOG

COG5201.

GeneTree

ENSGT00390000012652.

HOGENOM

HOG000172184.

KO

K03094.

OMA

PVEIANG.

OrthoDB

EOG4T1MX2.

Enzyme and pathway databases

UniPathway

UPA00143.

Gene expression databases

Genevestigator

P52286.

GermOnline

YDR328C. Saccharomyces cerevisiae.

Family and domain databases

Gene3D

3.30.710.10. 1 hit.

InterPro

IPR011333. BTB/POZ_fold.
IPR016897. E3_ubiquit_lig_SCF_Skp.
IPR001232. Skp1_comp.
IPR016072. Skp1_comp_dimer.
IPR016073. Skp1_comp_POZ.
[Graphical view]

PANTHER

PTHR11165. PTHR11165. 1 hit.

Pfam

PF01466. Skp1. 1 hit.
PF03931. Skp1_POZ. 1 hit.
[Graphical view]

PIRSF

PIRSF028729. E3_ubiquit_lig_SCF_Skp. 1 hit.

SMART

SM00512. Skp1. 1 hit.
[Graphical view]

SUPFAM

SSF54695. BTB/POZ_fold. 1 hit.
SSF81382. Skp1_comp_dimer. 1 hit.

ProtoNet

Search...

Other

EvolutionaryTrace

P52286.

NextBio

969983.

Entry information

Entry name

SKP1_YEAST

Accession

Primary (citable) accession number: P52286
Secondary accession number(s): D6VSW0, Q07186

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 1, 1996
Last sequence update:	January 23, 2007
Last modified:	April 3, 2013
This is version 128 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program