Protein Overview: RFA3

General Information:
Name(s) found:	RFA3 / YJL173C [SGD]
Description(s) found: SHOW ONLY BEST	gi\|6322288\|ref\|NP_012362.1\| Subunit of heterotrimeric Replication Protein A (RPA), which is a highly conserved single-stranded DNA binding protein involved in DNA replication, repair, and recombination; Rfa3p [Saccharomyces cerevisiae] [NCBI NR] gi\|4633\|emb\|CAA40110.1\| unnamed protein product [Saccharomyces cerevisiae] [NCBI NR] gi\|45270972\|gb\|AAS56867.1\| YJL173C [Saccharomyces cerevisiae] [NCBI NR] gi\|4316\|emb\|CAA42422.1\| replication factor-A protein 3 [Saccharomyces cerevisiae] [NCBI NR] gi\|132476\|sp\|P26755.1\|RFA3_YEAST RecName: Full=Replication factor A protein 3; Short=RF-A; AltName: Full=Replication protein A 13 kDa subunit [NCBI NR] pir\|\|C37281 replication factor A chain 3 - yeast (Saccharomyces cerevisiae) [NCBI NR] gi\|1008369\|emb\|CAA89468.1\| RFA3 [Saccharomyces cerevisiae] [NCBI NR] Replication factor A protein 3 OS=Saccharomyces cerevisiae GN=RFA3 PE=1 SV=1 [Swiss-Prot] RFA3 DNA replication factor A, 13 KD subunit [mips] Subunit of heterotrimeric Replication Protein A (RPA), which is a highly conserved single-stranded DNA binding protein involved in DNA replication, repair, and recombination [SGD] RFA3, Chr X from 96158-96526, reverse complement [yeast_orfs2] Chr X from 96158-96526, reverse complement [yeastorf3.fasta] Chr X from 96526-96158, reverse complement [yeastorf5.fasta] (P26755) Replication factor-A protein 3 (RF-A) (Replication protein A 13 kDa subunit) [4932.FASTACCERV.txt] RFA3 SGDID:S0003709, Chr X from 96527-96159, reverse complement, Verified ORF [yeastflysequest.fasta] Rfa3p [Saccharomyces cerevisiae]gi\|1008369\|emb\|CAA89468.1\| RFA3 [Saccharomyces cerevisiae]gi\|4316\|emb\|CAA42422.1\| replication factor-A protein 3 [Saccharomyces cerevisiae]gi\|4633\|emb\|CAA40110.1\| unnamed protein product [Saccharomyces cerevisiae]gi\|452 [nrdb_11152004_Chlamydomonas] RFA3 SGDID:S000003709, Chr X from 96527-96159, reverse complement, Verified ORF, "Subunit of heterotrimeric Replication Factor A (RF-A), which is a highly conserved single-stranded DNA binding protein involved in DNA replication, repair, and recombination [SGD_S-cerevisiae_na_12-16-2005_con_reversed.fasta] RFA3 SGDID:S000003709, Chr X from 96527-96159, reverse complement, Verified ORF, "Subunit of heterotrimeric Replication Protein A (RPA), which is a highly conserved single-stranded DNA binding protein involved in DNA replication, repair, and recombination [SGD_S-cerevisiae_na_08-19-2008_con_reversed.fasta] RFA3 [Saccharomyces cerevisiae] [nr-271106-contam.fasta] replication factor-A protein 3 [Saccharomyces cerevisiae] [nr-271106-contam.fasta] YJL173C [Saccharomyces cerevisiae] [nr-271106-contam.fasta] unnamed protein product [Saccharomyces cerevisiae] [nr-271106-contam.fasta] Replication factor-A protein 3 (RF-A) (Replication protein A 13 kDa subunit) [nr-271106-contam.fasta] Subunit of heterotrimeric Replication Factor A (RF-A), which is a highly conserved single-stranded DNA binding protein involved in DNA replication, repair, and recombination; Rfa3p [Saccharomyces cerevisiae] [nr-271106-contam.fasta] RFA3 SGDID:S000003709, Chr X from 96527-96159, reverse complement, Verified ORF, "Subunit of heterotrimeric Replication Protein A (RPA), which is a highly conserved single-stranded DNA binding protein involved in DNA replication, repair, and recombination" [yeast-bovrabprots.fasta] RFA3 SGDID:S000003709, Chr X from 96527-96159, reverse complement, Verified ORF, "Subunit of heterotrimeric Replication Factor A (RF-A), which is a highly conserved single-stranded DNA binding protein involved in DNA replication, repair, and recombination" [yeast-contam_custom.fasta] [chemostatdb.fasta] Replication factor A protein 3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RFA3 PE=1 SV=1 [UniProt_S_cerevisiae_20120516_05-16-2012_reversed.fasta] RFA3 SGDID:S000003709, Chr X from 96529-96161, Genome Release 64-1-1, reverse complement, Verified ORF, "Subunit of heterotrimeric Replication Protein A (RPA), which is a highly conserved single-stranded DNA binding protein involved in DNA replication, repair, and recombination" [yeast-030211-contam.fasta] RFA3 SGDID:S000003709, Chr X from 96529-96161, Genome Release 64-2-1, reverse complement, Verified ORF, "Subunit of heterotrimeric Replication Protein A (RPA); RPA is a highly conserved single-stranded DNA binding protein complex involved in DNA replication, repair, recombination; RPA protects against inappropriate telomere recombination, and upon telomere uncapping, prevents cell proliferation by a checkpoint-independent pathway; with Sgs1p-Top2p-Rmi1p, stimulates DNA catenation/decatenation activity of Top3p; protein abundance increases in response to DNA replication stress" [20141208_orf_trans.fasta] YJL173C SGDID:S000003709, Chr X from 96529-96161, Genome Release 64-1-1, reverse complement, Verified ORF, "Subunit of heterotrimeric Replication Protein A (RPA), which is a highly conserved single-stranded DNA binding protein involved in DNA replication, repair, and recombination" [2016-01-SGD_Yeast_Contam_Riffle_20140507-Ska-Hec-110-tubulin.fasta]
Organism:	Saccharomyces cerevisiae
Length:	122 amino acids
Gene Ontology:
Cellular Component:	chromosome, telomeric region [IMP] DNA replication factor A complex [TAS]
Biological Process:	DNA strand elongation involved in DNA replication [TAS] double-strand break repair via homologous recombination [IGI] DNA recombination [TAS] nucleotide-excision repair [TAS] DNA unwinding involved in replication [TAS] postreplication repair [TAS] DNA replication, synthesis of RNA primer [TAS]
Molecular Function:	DNA binding [TAS]

Sequence:
Sequence: [PDR BLAST] [ProtParam]	1 11 21 31 41 51 \| \| \| \| \| \| 1 MASETPRVDP TEISNVNAPV FRIIAQIKSQ PTESQLILQS PTISSKNGSE VEMITLNNIR 60 61 VSMNKTFEID SWYEFVCRNN DDGELGFLIL DAVLCKFKEN EDLSLNGVVA LQRLCKKYPE 120 121 IY

Protein Complex Data

	PUBLICATION	TOPOLOGY	COCOMPLEXED PROTEINS
View Details	Riffle et al. (2010) (Unpublished Data)		DNA2 RAD52 RFA1 RFA2 RFA3 RIM1 RTT105
View Details	(MIPS) Mewes HW, et al. (2004)		RFA1 RFA2 RFA3
View Details	Krogan NJ, et al. (2006)		DNA2 HSP12 PRO1 RFA1 RFA2 RFA3
View Details	Gavin AC, et al. (2002)		CMR1 DNA2 HDA1 HDA2 HDA3 HSC82 KAP95 LCD1 MEC1 MGM101 MLH1 MPH1 MSH2 MSH3 MSH6 OLA1 PGK1 PMS1 PRO2 RAD16 RAD52 RFA1 RFA2 RFA3 RIM1 RNH1 RSC8 RVB2 SGS1 SHS1 TIF1, TIF2 TOP3 VAS1 VPS1 YHR122W
View Details	Ho Y, et al. (2002)		AAC3 ARO1 CYS4 HEF3 HOR2 HXT7 MTC5 PGM2 RFA3 RHR2 YJR141W
View Details	Qiu et al. (2008)		MCM6 PRI2 RFA1 RFA2 RFA3 RFC4

Mass Spectrometry Data

The following runs contain data for this protein:

	BAIT	COMMENTS	PUBLICATION
View Run	BOI1	Sample bob1 (2nd set) from october 2005	McCusker D, et al (2007)

Yeast Two-Hybrid Data

The following interactions contain this protein:

SHOWING SINGLE HITS. [ Hide Single Hits ]

[View our yeast two-hybrid interpretation guidelines.]

	BAIT	PREY	HITS	PUBLICATION
View Screen	CDC40	RFA3	1	Unpublished Fields Lab Data

Microscopy / Localization Data

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	PROTEIN(S)	PUBLICATION
View Data	RFA3 and NOP56	Huh WK, et al. (2003)
View Data	RFA3	Huh WK, et al. (2003)

Protein Structure Data

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[View Top Sequence Alignments] [Show Ginzu Version Information]

Domains predicted:

#		Region(s)	Method	Confidence	Match Description
1	View Details	[1..122]	deduced	N/A	No confident structure predictions are available.

Functions predicted (by domain):

Gene Ontology predictions

Term	Confidence	Notes
telomeric DNA binding	6.80354805962079	bayes_pls_golite062009
single-stranded telomeric DNA binding	5.68297908219419	bayes_pls_golite062009
telomerase inhibitor activity	5.1433503909639	bayes_pls_golite062009
structure-specific DNA binding	3.21942642139833	bayes_pls_golite062009
single-stranded DNA binding	3.2177041772475	bayes_pls_golite062009
nucleic acid binding	3.06958664528424	bayes_pls_golite062009
binding	2.55343783977289	bayes_pls_golite062009
DNA binding	2.39520356118846	bayes_pls_golite062009
structural constituent of ribosome	2.05553707774342	bayes_pls_golite062009
structural molecule activity	1.91392288234828	bayes_pls_golite062009
DNA helicase activity	1.03434608237928	bayes_pls_golite062009
transcription regulator activity	0.786603442061911	bayes_pls_golite062009
DNA-dependent ATPase activity	0.633347054314125	bayes_pls_golite062009
translation regulator activity	0.370723767971907	bayes_pls_golite062009
nuclease activity	0.344602655860014	bayes_pls_golite062009
ribonuclease activity	0.327087435405429	bayes_pls_golite062009
double-stranded DNA binding	0.326586310136168	bayes_pls_golite062009
translation factor activity, nucleic acid binding	0.322367891458082	bayes_pls_golite062009
nucleotidyltransferase activity	0.285831998808043	bayes_pls_golite062009
DEAD/H-box RNA helicase binding	0.234313553803999	bayes_pls_golite062009
four-way junction helicase activity	0.149878585899218	bayes_pls_golite062009
exonuclease activity	0.123437412322173	bayes_pls_golite062009
sequence-specific DNA binding	0.112654475341878	bayes_pls_golite062009
protein binding	0.0856707433885143	bayes_pls_golite062009
transcription factor activity	0.0739391344707232	bayes_pls_golite062009
translation initiation factor activity	0.0214826254708589	bayes_pls_golite062009

Reference: Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

Philius Transmembrane Prediction:

Protein predicted to be:	GLOBULAR (No transmembrane regions or signal peptide)
Confidence of classification:	0.99

Source: Reynolds et al. (2008)

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2