P40348 (RFC2_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Replication factor C subunit 2
Short name=Replication factor C2

Alternative name(s):
Activator 1 41 kDa subunit

Gene names

Name:	RFC2
Ordered Locus Names:	YJR068W
ORF Names:	J1808

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

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

Protein attributes

Sequence length	353 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Component of ATP-dependent clamp loader (RFC and RFC-like) complexes for DNA clamps, such as the POL30/PCNA homotrimer and the checkpoint clamp DDC1:MEC3:RAD17 complex. During a clamp loading circle, the RFC:clamp complex binds to DNA and the recognition of the double-stranded/single-stranded junction stimulates ATP hydrolysis by RFC. The complex presumably provides bipartite ATP sites in which one subunit supplies a catalytic site for hydrolysis of ATP bound to the neighboring subunit. Dissociation of RFC from the clamp leaves the clamp encircling DNA. Component of the replication factor C (RFC or activator 1) complex which loads POL30/PCNA and acts during elongation of primed DNA templates by DNA polymerase delta and epsilon. RFC has an essential but redundant activity in sister chromatid cohesion establishment. Component of the RFC-like complex CTF18-RFC which is required for efficient establishment of chromosome cohesion during S-phase and may load or unload POL30/PCNA. Component of the RFC-like RAD24-RFC complex which loads the checkpoint clamp DDC1:MEC3:RAD17 complex and is involved in DNA repair pathways. Component of the RFC-like ELG1-RFC complex which appears to have a role in DNA replication, replication fork re-start, recombination and repair. RFC2 binds ATP and single-stranded DNA. Ref.9 Ref.13 Ref.14
Subunit structure	Replication factor C (RFC) is a heteropentamer of subunits RFC1, RFC2, RFC3, RFC4 and RFC5 and forms a complex with POL30/PCNA in the presence of ATP. Component of the RAD24-RFC complex which consists of RAD14, RFC2, RFC3, RFC4 and RFC5 and associates with the checkpoint clamp DDC1:MEC3:RAD17 complex. Component of the ELG1-RFC complex which consists of ELG1, RFC2, RFC3, RFC4 and RFC5. Component of the CTF18-RFC complex, which consists of CTF18, CTF8, DCC1, RFC2, RFC3, RFC4 and RFC5. RFC2 interacts with ECO1. Ref.7 Ref.9 Ref.10 Ref.11
Subcellular location	Nucleus Probable.
Miscellaneous	Present with 4610 molecules/cell in log phase SD medium. Ref.12
Sequence similarities	Belongs to the activator 1 small subunits family.

Ontologies

Keywords
Biological process	Cell cycle DNA replication
Cellular component	Nucleus
Ligand	ATP-binding DNA-binding Nucleotide-binding
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	cell cycle checkpoint Inferred from mutant phenotype. Source: SGD leading strand elongation Inferred from direct assay. Source: SGD mismatch repair Traceable author statement. Source: SGD sister chromatid cohesion Inferred from physical interaction Ref.8. Source: SGD
Cellular component	Ctf18 RFC-like complex Inferred from physical interaction Ref.8. Source: SGD DNA replication factor C complex Inferred from direct assay Ref.1. Source: SGD Elg1 RFC-like complex Inferred from physical interaction Ref.10. Source: SGD Rad17 RFC-like complex Inferred from direct assay Ref.13. Source: SGD nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW DNA clamp loader activity Inferred from electronic annotation. Source: InterPro protein binding Inferred from physical interaction Ref.9Ref.11. Source: UniProtKB
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
CTF18	P49956	2	EBI-14992,EBI-4560
CTF8	P38877	2	EBI-14992,EBI-5216
ELG1	Q12050	3	EBI-14992,EBI-32195
RAD24	P32641	4	EBI-14992,EBI-14675
RFC3	P38629	5	EBI-14992,EBI-15000

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 353

353

Replication factor C subunit 2

PRO_0000121760

Regions

Nucleotide binding

65 – 73

9

ATP

Sites

Binding site

28

1

ATP; via carbonyl oxygen

Binding site

32

1

ATP

Binding site

171

1

ATP

Binding site

229

1

ATP

Experimental info

Sequence conflict

12

1

K → R in AAS56246. Ref.6

Secondary structure

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353

Helix Strand Turn

Details...

Helix

27 – 30

4

Turn

36 – 38

3

Helix

46 – 52

7

Beta strand

61 – 64

4

Helix

72 – 82

11

Turn

86 – 90

5

Beta strand

91 – 95

5

Beta strand

97 – 99

3

Turn

104 – 108

5

Helix

109 – 115

7

Helix

125 – 128

4

Beta strand

135 – 139

5

Helix

142 – 144

3

Helix

147 – 159

13

Beta strand

164 – 169

6

Helix

173 – 175

3

Helix

178 – 183

6

Beta strand

184 – 188

5

Helix

194 – 206

13

Turn

207 – 209

3

Helix

217 – 223

7

Helix

233 – 237

5

Helix

253 – 257

5

Helix

266 – 276

11

Helix

280 – 292

13

Helix

300 – 310

11

Beta strand

312 – 314

3

Helix

316 – 333

18

Helix

340 – 352

13

Sequences

	Sequence		Length	Mass (Da)
	P40348 [UniParc]. Last modified February 1, 1995. Version 1. Checksum: 59B2C4223B0D13BF	FASTA	353	39,742
	10 20 30 40 50 60 MFEGFGPNKK RKISKLAAEQ SLAQQPWVEK YRPKNLDEVT AQDHAVTVLK KTLKSANLPH 70 80 90 100 110 120 MLFYGPPGTG KTSTILALTK ELYGPDLMKS RILELNASDE RGISIVREKV KNFARLTVSK 130 140 150 160 170 180 PSKHDLENYP CPPYKIIILD EADSMTADAQ SALRRTMETY SGVTRFCLIC NYVTRIIDPL 190 200 210 220 230 240 ASRCSKFRFK ALDASNAIDR LRFISEQENV KCDDGVLERI LDISAGDLRR GITLLQSASK 250 260 270 280 290 300 GAQYLGDGKN ITSTQVEELA GVVPHDILIE IVEKVKSGDF DEIKKYVNTF MKSGWSAASV 310 320 330 340 350 VNQLHEYYIT NDNFDTNFKN QISWLLFTTD SRLNNGTNEH IQLLNLLVKI SQL

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The RFC2 gene encoding a subunit of replication factor C of Saccharomyces cerevisiae." Noskov V., Maki S., Kawasaki Y., Leem S.-H., Ono B., Araki H., Pavlov Y., Sugino A. Nucleic Acids Res. 22:1527-1535(1994) [PubMed: 8202350] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[2]	"Characterization of the five replication factor C genes of Saccharomyces cerevisiae." Cullmann G., Fien K., Kobayashi R., Stillman B. Mol. Cell. Biol. 15:4661-4671(1995) [PubMed: 7651383] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], IDENTIFICATION IN THE RFC COMPLEX. Strain: ATCC 204508 / S288c.
[3]	"Analysis of a 62 kb DNA sequence of chromosome X reveals 36 open reading frames and a gene cluster with a counterpart on chromosome XI." Huang M.-E., Manus V., Chuat J.-C., Galibert F. Yeast 12:869-875(1996) [PubMed: 8840504] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[4]	"Complete nucleotide sequence of Saccharomyces cerevisiae chromosome X." Galibert F., Alexandraki D., Baur A., Boles E., Chalwatzis N., Chuat J.-C., Coster F., Cziepluch C., de Haan M., Domdey H., Durand P., Entian K.-D., Gatius M., Goffeau A., Grivell L.A., Hennemann A., Herbert C.J., Heumann K. , Hilger F., Hollenberg C.P., Huang M.-E., Jacq C., Jauniaux J.-C., Katsoulou C., Kirchrath L., Kleine K., Kordes E., Koetter P., Liebl S., Louis E.J., Manus V., Mewes H.-W., Miosga T., Obermaier B., Perea J., Pohl T.M., Portetelle D., Pujol A., Purnelle B., Ramezani Rad M., Rasmussen S.W., Rose M., Rossau R., Schaaff-Gerstenschlaeger I., Smits P.H.M., Scarcez T., Soriano N., To Van D., Tzermia M., Van Broekhoven A., Vandenbol M., Wedler H., von Wettstein D., Wambutt R., Zagulski M., Zollner A., Karpfinger-Hartl L. EMBO J. 15:2031-2049(1996) [PubMed: 8641269] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[5]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[6]	"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: 17322287] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[7]	"A novel Rad24 checkpoint protein complex closely related to replication factor C." Green C.M., Erdjument-Bromage H., Tempst P., Lowndes N.F. Curr. Biol. 10:39-42(2000) [PubMed: 10660302] [Abstract] Cited for: INTERACTION WITH RAD24, IDENTIFICATION IN THE RAD24-RFC COMPLEX.
[8]	"Identification of RFC(Ctf18p, Ctf8p, Dcc1p): an alternative RFC complex required for sister chromatid cohesion in S. cerevisiae." Mayer M.L., Gygi S.P., Aebersold R., Hieter P. Mol. Cell 7:959-970(2001) [PubMed: 11389843] [Abstract] Cited for: IDENTIFICATION IN THE CTF18-RFC COMPLEX.
[9]	"Chl12 (Ctf18) forms a novel replication factor C-related complex and functions redundantly with Rad24 in the DNA replication checkpoint pathway." Naiki T., Kondo T., Nakada D., Matsumoto K., Sugimoto K. Mol. Cell. Biol. 21:5838-5845(2001) [PubMed: 11486023] [Abstract] Cited for: FUNCTION, INTERACTION WITH CTF18.
[10]	"Elg1 forms an alternative RFC complex important for DNA replication and genome integrity." Bellaoui M., Chang M., Ou J., Xu H., Boone C., Brown G.W. EMBO J. 22:4304-4313(2003) [PubMed: 12912927] [Abstract] Cited for: INTERACTION WITH ELG1.
[11]	"Mechanical link between cohesion establishment and DNA replication: Ctf7p/Eco1p, a cohesion establishment factor, associates with three different replication factor C complexes." Kenna M.A., Skibbens R.V. Mol. Cell. Biol. 23:2999-3007(2003) [PubMed: 12665596] [Abstract] Cited for: INTERACTION WITH ECO1.
[12]	"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: 14562106] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[13]	"Yeast Rad17/Mec3/Ddc1: a sliding clamp for the DNA damage checkpoint." Majka J., Burgers P.M.J. Proc. Natl. Acad. Sci. U.S.A. 100:2249-2254(2003) [PubMed: 12604797] [Abstract] Cited for: IDENTIFICATION IN THE RAD24-RFC COMPLEX, FUNCTION OF THE RAD24-RFC COMPLEX.
[14]	"Replication protein A-directed unloading of PCNA by the Ctf18 cohesion establishment complex." Bylund G.O., Burgers P.M. Mol. Cell. Biol. 25:5445-5455(2005) [PubMed: 15964801] [Abstract] Cited for: IDENTIFICATION IN THE RFC COMPLEX, IDENTIFICATION IN THE RAD24-RFC COMPLEX, IDENTIFICATION IN THE ELG1-RFC COMPLEX, IDENTIFICATION IN THE CTF18-RFC COMPLEX, FUNCTION OF THE CTF18-RFC COMPLEX.
[15]	"Structural analysis of a eukaryotic sliding DNA clamp-clamp loader complex." Bowman G.D., O'Donnell M., Kuriyan J. Nature 429:724-730(2004) [PubMed: 15201901] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.85 ANGSTROMS) IN COMPLEX WITH AN ATP ANALOG; RCF1; RCF3; RCF4; RCF5 AND PCNA.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

D28499 Genomic DNA. Translation: BAA05858.1.
U26028 Genomic DNA. Translation: AAC49061.1.
Z49568 Genomic DNA. Translation: CAA89596.1.
L47993 Genomic DNA. Translation: AAB39294.1.
AY557920 Genomic DNA. Translation: AAS56246.1.
BK006943 Genomic DNA. Translation: DAA08855.1.

PIR

S45531.

RefSeq

NP_012602.1. NM_001181726.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1SXJ	X-ray	2.85	D	1-353	[»]

ProteinModelPortal

P40348.

SMR

P40348. Positions 26-353.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-2528N.

IntAct

P40348. 42 interactions.

MINT

MINT-480404.

STRING

P40348.

Proteomic databases

PeptideAtlas

P40348.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblFungi

YJR068W; YJR068W; YJR068W.

GeneID

853531.

KEGG

sce:YJR068W.

NMPDR

fig|4932.3.peg.3576.

Organism-specific databases

CYGD

YJR068w.

SGD

S000003829. RFC2.

Phylogenomic databases

eggNOG

fuNOG06094.

HOGENOM

HBG541599.

OMA

QDHAVTV.

OrthoDB

EOG4ZCXDF.

Gene expression databases

ArrayExpress

P40348.

Genevestigator

P40348.

GermOnline

YJR068W. Saccharomyces cerevisiae.

Family and domain databases

InterPro

IPR003593. ATPase_AAA+_core.
IPR003959. ATPase_AAA_core.
IPR008921. DNA_pol3_clamp-load_cplx_C.
IPR013748. Rep_factor-C.
[Graphical view]

KO

K10755.

Pfam

PF00004. AAA. 1 hit.
PF08542. Rep_fac_C. 1 hit.
[Graphical view]

SMART

SM00382. AAA. 1 hit.
[Graphical view]

SUPFAM

SSF48019. Pol_clamp_load_C. 1 hit.

ProtoNet

Search...

Other

NextBio

974230.

Entry information

Entry name

RFC2_YEAST

Accession

Primary (citable) accession number: P40348
Secondary accession number(s): D6VWN9, E9P8U1

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1995
Last sequence update:	February 1, 1995
Last modified:	December 14, 2011
This is version 100 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program