Cell division control protein 4 - Saccharomyces cerevisiae (Baker's yeast)

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Reviewed, UniProtKB/Swiss-Prot P07834 (CDC4_YEAST)

Last modified January 19, 2010. Version 111. History...

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Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Binary interactions · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents

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Names and origin

Protein names

Recommended name:
    Cell division control protein 4
Alternative name(s):
    F-box protein CDC4
    E3 ubiquitin ligase complex SCF subunit CDC4

Gene names

Name:	CDC4
Ordered Locus Names:	YFL009W

Organism

Saccharomyces cerevisiae (Baker's yeast) [Complete proteome]

Taxonomic identifier

4932 [NCBI]

Taxonomic lineage

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

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Protein attributes

Sequence length	779 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level.

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General annotation (Comments)

Function	Substrate recognition component of a SCF (SKP1-CUL1-F-box protein) E3 ubiquitin-protein ligase complex which mediates the ubiquitination and subsequent proteasomal degradation of target proteins. Recognizes and binds to phosphorylated target proteins. Directs ubiquitination of the phosphorylated CDK inhibitor SIC1. Involved in the degradation of CDC6 together with CDC34/UBC3 and CDC53, and in restricting the degradation of FAR1 to the nucleus. Is essential for initiation of DNA replication and separation of the spindle pole bodies to form the poles of the mitotic spindle. It also plays a role in bud development, fusion of zygotic nuclei after conjugation and various aspects of sporulation. Required for HTA1-HTB1 locus transcription activation. Required for G1/S and G2/M transition. Ref.4 Ref.6 Ref.7 Ref.8 Ref.9 Ref.10 Ref.13 Ref.14 Ref.15
Pathway	Protein modification; protein ubiquitination.
Subunit structure	Interacts with DCD53 and SKP1. Component of the SCF(CDC4) complex containing CDC53, SKP1, RBX1 and CDC4. CDC34. Interacts with CDC6 and CIC1. Interacts with SIC1; the interaction involves a SIC1 double phosphorylated motif (degron). Homodimerizes; the dimerization increases SIC1 ubiquitination in vitro. Ref.6 Ref.7 Ref.8 Ref.9 Ref.10 Ref.5 Ref.11 Ref.12 Ref.16 Ref.17 Ref.18
Subcellular location	Nucleus Ref.15.
Sequence similarities	Contains 1 F-box domain. Contains 7 WD repeats.

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Ontologies

Keywords
Biological process	Cell cycle Cell division Mitosis Sporulation Ubl conjugation pathway
Cellular component	Nucleus
Domain	Repeat WD repeat
PTM	Phosphoprotein
Technical term	3D-structure Complete proteome
Gene Ontology (GO)
Biological process	G1/S transition of mitotic cell cycle Ref.13 Inferred from mutant phenotype. Source: SGD G2/M transition of mitotic cell cycle Ref.13 Inferred from genetic interaction. Source: SGD SCF-dependent proteasomal ubiquitin-dependent protein catabolic process Ref.6 Ref.7 Inferred from direct assay. Source: SGD cell division Inferred from electronic annotation. Source: UniProtKB-KW meiosis Inferred from mutant phenotype. Source: SGD mitosis Inferred from electronic annotation. Source: UniProtKB-KW protein ubiquitination during ubiquitin-dependent protein catabolic process Ref.6 Ref.7 Inferred from direct assay. Source: SGD sporulation resulting in formation of a cellular spore Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	nuclear SCF ubiquitin ligase complex Ref.15 Inferred from direct assay. Source: SGD nuclear matrix Inferred from direct assay. Source: SGD
Molecular function	protein binding Ref.11 Ref.16 Inferred from physical interaction. Source: IntAct
Complete GO annotation...

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Binary interactions

With	Entry	#Exp.	IntAct
CDC53	Q12018	2	EBI-4434,EBI-4321
CIC1	P38779	1	EBI-4434,EBI-24538
SKP1	P52286	6	EBI-4434,EBI-4090

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Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 779

779

Cell division control protein 4

PRO_0000050899

Regions

Domain

272 – 319

F-box

Repeat

380 – 408

WD 1

Repeat

420 – 449

WD 2

Repeat

461 – 493

WD 3

Repeat

528 – 556

WD 4

Repeat

568 – 598

WD 5

Repeat

630 – 658

WD 6

Repeat

669 – 698

WD 7

Motif

82 – 85

Nuclear localization signal

Amino acid modifications

Modified residue

Phosphoserine Ref.19

Modified residue

Phosphoserine Ref.19

Experimental info

Mutagenesis

K → A: Prevents nuclear localization; when associated with A-83 and A-85.

Mutagenesis

R → A: Prevents nuclear localization; when associated with A-82 and A-85.

Mutagenesis

R → G: Prevents nuclear localization.

Mutagenesis

K → A: Prevents nuclear localization; when associated with A-82 and A-83. Ref.15

Sequence conflict

460

K → E in CAA29113. Ref.1

Secondary structure

779

Helix Strand Turn

Details...

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Sequences

Sequence

Length

Mass (Da)

Tools

P07834-1 [UniParc].

Last modified November 1, 1995. Version 2.
Checksum: 0348F2F8FA78F3BC
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FASTA

779

86,090

        10         20         30         40         50         60 
MGSFPLAEFP LRDIPVPYSY RVSGGIASSG SVTALVTAAG THRNSSTAKT VETEDGEEDI 

        70         80         90        100        110        120 
DEYQRKRAAG SGESTPERSD FKRVKHDNHK TLHPVNLQNT GAASVDNDGL HNLTDISNDA 

       130        140        150        160        170        180 
EKLLMSVDDG SAAPSTLSVN MGVASHNVAA PTTVNAATIT GSDVSNNVNS ATINNPMEEG 

       190        200        210        220        230        240 
ALPLSPTASS PGTTTPLAKT TKTINNNNNI ADLIESKDSI ISPEYLSDEI FSAINNNLPH 

       250        260        270        280        290        300 
AYFKNLLFRL VANMDRSELS DLGTLIKDNL KRDLITSLPF EISLKIFNYL QFEDIINSLG 

       310        320        330        340        350        360 
VSQNWNKIIR KSTSLWKKLL ISENFVSPKG FNSLNLKLSQ KYPKLSQQDR LRLSFLENIF 

       370        380        390        400        410        420 
ILKNWYNPKF VPQRTTLRGH MTSVITCLQF EDNYVITGAD DKMIRVYDSI NKKFLLQLSG 

       430        440        450        460        470        480 
HDGGVWALKY AHGGILVSGS TDRTVRVWDI KKGCCTHVFK GHNSTVRCLD IVEYKNIKYI 

       490        500        510        520        530        540 
VTGSRDNTLH VWKLPKESSV PDHGEEHDYP LVFHTPEENP YFVGVLRGHM ASVRTVSGHG 

       550        560        570        580        590        600 
NIVVSGSYDN TLIVWDVAQM KCLYILSGHT DRIYSTIYDH ERKRCISASM DTTIRIWDLE 

       610        620        630        640        650        660 
NIWNNGECSY ATNSASPCAK ILGAMYTLQG HTALVGLLRL SDKFLVSAAA DGSIRGWDAN 

       670        680        690        700        710        720 
DYSRKFSYHH TNLSAITTFY VSDNILVSGS ENQFNIYNLR SGKLVHANIL KDADQIWSVN 

       730        740        750        760        770 
FKGKTLVAAV EKDGQSFLEI LDFSKASKIN YVSNPVNSSS SSLESISTSL GLTRTTIIP

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References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Structural comparison of the yeast cell division cycle gene CDC4 and a related pseudogene." Yochem J., Byers B. J. Mol. Biol. 195:233-245(1987) [PubMed: 3309335] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"Analysis of the nucleotide sequence of chromosome VI from Saccharomyces cerevisiae." Murakami Y., Naitou M., Hagiwara H., Shibata T., Ozawa M., Sasanuma S., Sasanuma M., Tsuchiya Y., Soeda E., Yokoyama K., Yamazaki M., Tashiro H., Eki T. Nat. Genet. 10:261-268(1995) [PubMed: 7670463] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972.
[3]	Barrell B.G., Churcher C., Rajandream M.A. Submitted (SEP-1994) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-579. Strain: ATCC 204511 / S288c / AB972.
[4]	"Regulated degradation of the transcription factor Gcn4." Kornitzer D., Raboy B., Kulka R.G., Fink G.R. EMBO J. 13:6021-6030(1994) [PubMed: 7813440] [Abstract] Cited for: FUNCTION.
[5]	"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: 8706131] [Abstract] Cited for: INTERACTION WITH SKP1/CBF3D. Strain: ATCC 204508 / S288c.
[6]	"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: 9346238] [Abstract] Cited for: FUNCTION, SUBUNIT.
[7]	"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: 9346239] [Abstract] Cited for: FUNCTION, SUBUNIT.
[8]	"Grr1 of Saccharomyces cerevisiae is connected to the ubiquitin proteolysis machinery through Skp1: coupling glucose sensing to gene expression and the cell cycle." Li F.N., Johnston M. EMBO J. 16:5629-5638(1997) [PubMed: 9312022] [Abstract] Cited for: FUNCTION, INTERACTION WITH SKP1.
[9]	"The Cdc4/34/53 pathway targets Cdc6p for proteolysis in budding yeast." Drury L.S., Perkins G., Diffley J.F. EMBO J. 16:5966-5976(1997) [PubMed: 9312054] [Abstract] Cited for: FUNCTION, INTERACTION WITH CDC6.
[10]	"The Cdc42p effector Gic2p is targeted for ubiquitin-dependent degradation by the SCFGrr1 complex." Jaquenoud M., Gulli M.P., Peter K., Peter M. EMBO J. 17:5360-5373(1998) [PubMed: 9736614] [Abstract] Cited for: FUNCTION, SUBUNIT.
[11]	"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: 9499404] [Abstract] Cited for: INTERACTION WITH CDC53.
[12]	"Cdc53/cullin and the essential Hrt1 RING-H2 subunit of SCF define a ubiquitin ligase module that activates the E2 enzyme Cdc34." Seol J.H., Feldman R.M.R., Zachariae W., Shevchenko A., Correll C.C., Lyapina S., Chi Y., Galova M., Claypool J., Sandmeyer S., Nasmyth K., Shevchenko A., Deshaies R.J. Genes Dev. 13:1614-1626(1999) [PubMed: 10385629] [Abstract] Cited for: INTERACTION WITH HRT1.
[13]	"Cdc4, a protein required for the onset of S phase, serves an essential function during G(2)/M transition in Saccharomyces cerevisiae." Goh P.Y., Surana U. Mol. Cell. Biol. 19:5512-5522(1999) [PubMed: 10409741] [Abstract] Cited for: FUNCTION.
[14]	"Reconstitution of G1 cyclin ubiquitination with complexes containing SCFGrr1 and Rbx1." Skowyra D., Koepp D.M., Kamura T., Conrad M.N., Conaway R.C., Conaway J.W., Elledge S.J., Harper J.W. Science 284:662-665(1999) [PubMed: 10213692] [Abstract] Cited for: FUNCTION, RECONSTITUTION OF THE SKF(GRR1)COMPLEX.
[15]	"Nuclear-specific degradation of Far1 is controlled by the localization of the F-box protein Cdc4." Blondel M., Galan J.M., Chi Y., Lafourcade C., Longaretti C., Deshaies R.J., Peter M. EMBO J. 19:6085-6097(2000) [PubMed: 11080155] [Abstract] Cited for: FUNCTION, SUBCELLULAR LOCATION, MUTAGENESIS OF 82-LYS-ARG-83 AND LYS-85.
[16]	"Cic1, an adaptor protein specifically linking the 26S proteasome to its substrate, the SCF component Cdc4." Jaeger S., Strayle J., Heinemeyer W., Wolf D.H. EMBO J. 20:4423-4431(2001) [PubMed: 11500370] [Abstract] Cited for: INTERACTION WITH CIC1.
[17]	"Functional interaction of 13 yeast SCF complexes with a set of yeast E2 enzymes in vitro." Kus B.M., Caldon C.E., Andorn-Broza R., Edwards A.M. Proteins 54:455-467(2004) [PubMed: 14747994] [Abstract] Cited for: INTERACTION WITH SKP1, RECONSTITUTION OF THE SCF(CDC4) COMPLEX.
[18]	"Structure of a Fbw7-Skp1-cyclin E complex: multisite-phosphorylated substrate recognition by SCF ubiquitin ligases." Hao B., Oehlmann S., Sowa M.E., Harper J.W., Pavletich N.P. Mol. Cell 26:131-143(2007) [PubMed: 17434132] [Abstract] Cited for: HOMODIMERIZATION, INTERACTION WITH SIC1.
[19]	"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: 18407956] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-3 AND SER-31, MASS SPECTROMETRY.
+	Additional computationally mapped references.

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Cross-references

Sequence databases

EMBL
GenBank
DDBJ

X05625 Genomic DNA. Translation: CAA29113.1.
D50617 Genomic DNA. Translation: BAA09229.1.
Z46255 Genomic DNA. Translation: CAA86341.1.

PIR

S56245.

RefSeq

NP_116585.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1NEX	X-ray	2.70	B/D	263-744	[»]
2P63	X-ray	2.67	A/B/C/D	222-273	[»]

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-1625N.

IntAct

P07834. 8 interactions.

STRING

P07834.

Proteomic databases

PRIDE

P07834.

Genome annotation databases

Ensembl

YFL009W; YFL009W; YFL009W; Saccharomyces cerevisiae. [Genome view]

GeneID

850539.

KEGG

sce:YFL009W.

NMPDR

fig|4932.3.peg.2277.

Organism-specific databases

CYGD

YFL009w.

SGD

S000001885. CDC4.

Phylogenomic databases

eggNOG

HOGENOM

OMA

OrthoDB

PhylomeDB

P07834.

Gene expression databases

ArrayExpress

P07834.

Genevestigator

P07834.

GermOnline

YFL009W. Saccharomyces cerevisiae.

Family and domain databases

InterPro

IPR001810. F-box.
IPR020472. G-protein_beta_WD-40_rep_reg.
IPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR011046. WD40_repeat-like_dom.
IPR019782. WD40_repeat_2.
IPR019775. WD40_repeat_CS.
IPR017986. WD40_repeat_dom.
IPR019781. WD40_repeat_sg.
[Graphical view]

Gene3D

G3DSA:2.130.10.10. WD40/YVTN_repeat-like. 2 hits.

Pfam

PF00646. F-box. 1 hit.
PF00400. WD40. 6 hits.
[Graphical view]

PRINTS

PR00320. GPROTEINBRPT.

SMART

SM00256. FBOX. 1 hit.
SM00320. WD40. 7 hits.
[Graphical view]

PROSITE

PS50181. FBOX. 1 hit.
PS00678. WD_REPEATS_1. 4 hits.
PS50082. WD_REPEATS_2. 5 hits.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view]

ProtoNet

Search...

Other Resources

NextBio

966298.

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Entry information

Entry name

CDC4_YEAST

Accession

Primary (citable) accession number: P07834

Entry history

Integrated into UniProtKB/Swiss-Prot:	August 1, 1988
Last sequence update:	November 1, 1995
Last modified:	January 19, 2010
This is version 111 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

FPAP (Fungal Proteome Annotation Project)

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Relevant documents

PATHWAY comments

Index of metabolic and biosynthesis pathways

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Yeast

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

Yeast chromosome VI

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

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

Experimental info

Secondary structure

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Proteomic databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

Other Resources

Entry information

Relevant documents