P14164 (ABF1_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
ARS-binding factor 1

Alternative name(s):
Bidirectionally acting factor 1
DNA replication enhancer-binding protein OBF1
SFB-B

Gene names

Name:	ABF1
Synonyms:	BAF1, OBF1, REB2, SBF1
Ordered Locus Names:	YKL112W
ORF Names:	YKL505

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	731 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	General regulatory factor (GRF) that contributes to transcriptional activation of a large number of genes, as well as to DNA replication, silencing and telomere structure. Involved in the transcription activation of a subset of ribosomal protein genes. Binds the ARS-elements found in many promoters. Binds to the sequence 5'-TCN7ACG-3'. Influences on genome-wide nucleosome occupancy and affects chromatin structure, and probably dynamics. As a component of the global genome repair (GGR) complex, promotes global genome nucleotide excision repair (GG-NER) which removes DNA damage from nontranscribing DNA. Component of the regulatory network controlling mitotic and meiotic cell cycle progression. Ref.11 Ref.12 Ref.13 Ref.14 Ref.15 Ref.18 Ref.19 Ref.22 Ref.24 Ref.27 Ref.29 Ref.31
Subunit structure	Component of the global genome repair (GGR) complex composed of at least ABF1, RAD7 and RAD16. Interacts with PSE1. Ref.11 Ref.20
Subcellular location	Nucleus Ref.20.
Domain	Contains 2 important clusters of amino acid residues in the C terminus (C-terminal sequence 1 or CS1, residues 624 to 628; and CS2, residues 639 to 662). CS1 specifically participates in transcriptional silencing and/or repression in a context-dependent manner, whereas CS2 is universally required for all functions of ABF1. Ref.15
Post-translational modification	Extensively phosphorylated on Ser and Thr residues. Ref.4 Ref.9
Miscellaneous	Present with 4820 molecules/cell in log phase SD medium.
Sequence similarities	Belongs to the BAF1 family.

Ontologies

Keywords
Biological process	DNA damage DNA repair DNA replication Transcription Transcription regulation
Cellular component	Nucleus
Ligand	DNA-binding
Molecular function	Activator
PTM	Phosphoprotein
Technical term	Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological_process	DNA-dependent DNA replication Inferred from direct assay Ref.15. Source: SGD chromatin remodeling Inferred from direct assay Ref.12Ref.13. Source: SGD chromatin silencing at silent mating-type cassette Inferred from mutant phenotype Ref.22PubMed 8582634. Source: SGD global genome nucleotide-excision repair Inferred from direct assay Ref.18. Source: SGD negative regulation of transcription from RNA polymerase II promoter Inferred from mutant phenotype PubMed 15192094. Source: SGD
Cellular_component	nucleotide-excision repair factor 4 complex Inferred from direct assay Ref.11. Source: SGD
Molecular_function	DNA replication origin binding Inferred from direct assay PubMed 16824194PubMed 3281162. Source: SGD RNA polymerase II core promoter proximal region sequence-specific DNA binding Inferred from direct assay PubMed 7663308. Source: SGD RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription Inferred from direct assay PubMed 7663308. Source: SGD sequence-specific DNA binding, bending Inferred from direct assay PubMed 8206955. Source: SGD
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 731	731	ARS-binding factor 1		PRO_0000064807
Regions
	Region	624 – 628	5	C-terminal sequence 1
	Region	639 – 662	24	C-terminal sequence 2
	Compositional bias	94 – 294	201	Asn-rich
	Compositional bias	449 – 510	62	Asn-rich
Amino acid modifications
	Modified residue	189	1	Phosphothreonine Ref.25 Ref.28
	Modified residue	193	1	Phosphoserine Ref.25 Ref.28
	Modified residue	258	1	Phosphoserine Ref.28
	Modified residue	302	1	Phosphoserine Ref.28
	Modified residue	304	1	Phosphoserine Ref.28
	Modified residue	467	1	Phosphoserine Ref.16 Ref.23 Ref.28
	Modified residue	554	1	Phosphoserine Ref.28
	Modified residue	618	1	Phosphoserine Ref.25 Ref.28
	Modified residue	624	1	Phosphoserine; by PKC Potential
	Modified residue	720	1	Phosphoserine; by CK2 Ref.9 Ref.23 Ref.28
Experimental info
	Mutagenesis	57	1	H → Q: Loss of DNA binding. Ref.1
	Mutagenesis	71	1	C → S: Loss of DNA binding. Ref.1
	Mutagenesis	625	1	K → I: Leads to mislocalization into the cytoplasm. Ref.20
	Mutagenesis	720	1	S → A: Strongly reduces phosphorylation by CK2. Ref.9
	Sequence conflict	125	1	N → K in CAA34421. Ref.1
	Sequence conflict	128	1	V → A in CAA35966. Ref.2
	Sequence conflict	128	1	V → A in AAA66311. Ref.3
	Sequence conflict	128	1	V → A in AAA34823. Ref.4
	Sequence conflict	148	1	T → I in CAA35966. Ref.2
	Sequence conflict	148	1	T → I in AAA66311. Ref.3
	Sequence conflict	148	1	T → I in AAA34823. Ref.4
	Sequence conflict	279 – 280	2	NT → TN in CAA35966. Ref.2
	Sequence conflict	279 – 280	2	NT → TN in AAA66311. Ref.3
	Sequence conflict	279 – 280	2	NT → TN in AAA34823. Ref.4
	Sequence conflict	690	1	T → N in CAA35966. Ref.2
	Sequence conflict	690	1	T → N in AAA66311. Ref.3
	Sequence conflict	690	1	T → N in AAA34823. Ref.4

Sequences

	Sequence		Length	Mass (Da)
	P14164 [UniParc]. Last modified October 5, 2010. Version 4. Checksum: BE338DA7C9514DC3	FASTA	731	81,753
	10 20 30 40 50 60 MDKLVVNYYE YKHPIINKDL AIGAHGGKKF PTLGAWYDVI NEYEFQTRCP IILKNSHRNK 70 80 90 100 110 120 HFTFACHLKN CPFKVLLSYA GNAASSETSS PSANNNTNPP GTPDHIHHHS NNMNNEDNDN 130 140 150 160 170 180 NNGSNNKVSN DSKLDFVTDD LEYHLANTHP DDTNDKVESR SNEVNGNNDD DADANNIFKQ 190 200 210 220 230 240 QGVTIKNDTE DDSINKASID RGLDDESGPT HGNDSGNHRH NEEDDVHTQM TKNYSDVVND 250 260 270 280 290 300 EDINVAIANA VANVDSQSNN KHDGKDDDAT NNNDGQDNNT NNDHNNNSNI NNNNVGSHGI 310 320 330 340 350 360 SSHSPSSIRD TSMNLDVFNS ATDDIPGPFV VTKIEPYHSH PLEDNLSLGK FILTKIPKIL 370 380 390 400 410 420 QNDLKFDQIL ESSYNNSNHT VSKFKVSHYV EESGLLDILM QRYGLTAEDF EKRLLSQIAR 430 440 450 460 470 480 RITTYKARFV LKKKKMGEYN DLQPSSSSNN NNNNDGELSG TNLRSNSIDY AKHQEISSAG 490 500 510 520 530 540 TSSNTTKNVN NNKNDSNDDN NGNNNNDASN LMESVLDKTS SHRYQPKKMP SVNKWSKPDQ 550 560 570 580 590 600 ITHSDVSMVG LDESNDGGNE NVHPTLAEVD AQEARETAQL AIDKINSYKR SIDDKNGDGH 610 620 630 640 650 660 NNSSRNVVDE NLINDMDSED AHKSKRQHLS DITLEERNED DKLPHEVAEQ LRLLSSHLKE 670 680 690 700 710 720 VENLHQNNDD DVDDVMVDVD VESQYNKNTT HHNNHHSQPH HDEEDVAGLI GKADDEEDLS 730 DENIQPELRG Q

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Sequence, expression and mutational analysis of BAF1, a transcriptional activator and ARS1-binding protein of the yeast Saccharomyces cerevisiae." Halfter H., Kavety B., Vandekerckhove J., Kiefer F., Gallwitz D. EMBO J. 8:4265-4272(1989) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], PROTEIN SEQUENCE OF 128-154 AND 535-555, MUTAGENESIS OF HIS-57 AND CYS-71.
[2]	"The gene encoding ARS-binding factor I is essential for the viability of yeast." Rhode P.R., Sweder K.S., Oegema K.F., Campbell J.L. Genes Dev. 3:1926-1939(1989) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[3]	"Similarity between the transcriptional silencer binding proteins ABF1 and RAP1." Diffley J.F.X., Stillman B. Science 246:1034-1038(1989) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[4]	"The multifunctional protein OBF1 is phosphorylated at serine and threonine residues in Saccharomyces cerevisiae." Francesconi S.C., Eisenberg S. Proc. Natl. Acad. Sci. U.S.A. 88:4089-4093(1991) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], PHOSPHORYLATION.
[5]	"Sequence of a 10.7 kb segment of yeast chromosome XI identifies the APN1 and the BAF1 loci and reveals one tRNA gene and several new open reading frames including homologs to RAD2 and kinases." Jacquier A., Legrain P., Dujon B. Yeast 8:121-132(1992) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[6]	"Complete DNA sequence of yeast chromosome XI." Dujon B., Alexandraki D., Andre B., Ansorge W., Baladron V., Ballesta J.P.G., Banrevi A., Bolle P.-A., Bolotin-Fukuhara M., Bossier P., Bou G., Boyer J., Buitrago M.J., Cheret G., Colleaux L., Daignan-Fornier B., del Rey F., Dion C. , Domdey H., Duesterhoeft A., Duesterhus S., Entian K.-D., Erfle H., Esteban P.F., Feldmann H., Fernandes L., Fobo G.M., Fritz C., Fukuhara H., Gabel C., Gaillon L., Garcia-Cantalejo J.M., Garcia-Ramirez J.J., Gent M.E., Ghazvini M., Goffeau A., Gonzalez A., Grothues D., Guerreiro P., Hegemann J.H., Hewitt N., Hilger F., Hollenberg C.P., Horaitis O., Indge K.J., Jacquier A., James C.M., Jauniaux J.-C., Jimenez A., Keuchel H., Kirchrath L., Kleine K., Koetter P., Legrain P., Liebl S., Louis E.J., Maia e Silva A., Marck C., Monnier A.-L., Moestl D., Mueller S., Obermaier B., Oliver S.G., Pallier C., Pascolo S., Pfeiffer F., Philippsen P., Planta R.J., Pohl F.M., Pohl T.M., Poehlmann R., Portetelle D., Purnelle B., Puzos V., Ramezani Rad M., Rasmussen S.W., Remacha M.A., Revuelta J.L., Richard G.-F., Rieger M., Rodrigues-Pousada C., Rose M., Rupp T., Santos M.A., Schwager C., Sensen C., Skala J., Soares H., Sor F., Stegemann J., Tettelin H., Thierry A., Tzermia M., Urrestarazu L.A., van Dyck L., van Vliet-Reedijk J.C., Valens M., Vandenbol M., Vilela C., Vissers S., von Wettstein D., Voss H., Wiemann S., Xu G., Zimmermann J., Haasemann M., Becker I., Mewes H.-W. Nature 369:371-378(1994) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[7]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[8]	"Two Saccharomyces cerevisiae genes which control sensitivity to G1 arrest induced by Kluyveromyces lactis toxin." Butler A.R., White J.H., Folawiyo Y., Edlin A., Gardiner D., Stark M.J.R. Mol. Cell. Biol. 14:6306-6316(1994) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 585-731.
[9]	"ABF1 Ser-720 is a predominant phosphorylation site for casein kinase II of Saccharomyces cerevisiae." Upton T., Wiltshire S., Francesconi S., Eisenberg S. J. Biol. Chem. 270:16153-16159(1995) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION AT SER-720, MUTAGENESIS OF SER-720.
[10]	"Saccharomyces cerevisiae Cdc6 stimulates Abf1 DNA binding activity." Feng L., Wang B., Jong A. J. Biol. Chem. 273:1298-1302(1998) [PubMed] [Europe PMC] [Abstract] Cited for: DNA-BINDING.
[11]	"Yeast autonomously replicating sequence binding factor is involved in nucleotide excision repair." Reed S.H., Akiyama M., Stillman B., Friedberg E.C. Genes Dev. 13:3052-3058(1999) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION IN THE GGR COMPLEX, FUNCTION.
[12]	"Different roles for abf1p and a T-rich promoter element in nucleosome organization of the yeast RPS28A gene." Lascaris R.F., Groot E., Hoen P.B., Mager W.H., Planta R.J. Nucleic Acids Res. 28:1390-1396(2000) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION.
[13]	"RNA polymerase II and III transcription factors can stimulate DNA replication by modifying origin chromatin structures." Bodmer-Glavas M., Edler K., Barberis A. Nucleic Acids Res. 29:4570-4580(2001) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION.
[14]	"General regulatory factors (GRFs) as genome partitioners." Fourel G., Miyake T., Defossez P.-A., Li R., Gilson E. J. Biol. Chem. 277:41736-41743(2002) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION.
[15]	"Identification of a multifunctional domain in autonomously replicating sequence-binding factor 1 required for transcriptional activation, DNA replication, and gene silencing." Miyake T., Loch C.M., Li R. Mol. Cell. Biol. 22:505-516(2002) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, DOMAIN.
[16]	"Phosphoproteome analysis by mass spectrometry and its application to Saccharomyces cerevisiae." Ficarro S.B., McCleland M.L., Stukenberg P.T., Burke D.J., Ross M.M., Shabanowitz J., Hunt D.F., White F.M. Nat. Biotechnol. 20:301-305(2002) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-467, MASS SPECTROMETRY. Strain: 2124.
[17]	"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].
[18]	"The yeast Rad7/Rad16/Abf1 complex generates superhelical torsion in DNA that is required for nucleotide excision repair." Yu S., Owen-Hughes T., Friedberg E.C., Waters R., Reed S.H. DNA Repair 3:277-287(2004) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION OF THE GGR COMPLEX.
[19]	"Comparison of ABF1 and RAP1 in chromatin opening and transactivator potentiation in the budding yeast Saccharomyces cerevisiae." Yarragudi A., Miyake T., Li R., Morse R.H. Mol. Cell. Biol. 24:9152-9164(2004) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION.
[20]	"Functional and physical interactions between autonomously replicating sequence-binding factor 1 and the nuclear transport machinery." Loch C.M., Mosammaparast N., Miyake T., Pemberton L.F., Li R. Traffic 5:925-935(2004) [PubMed] [Europe PMC] [Abstract] Cited for: SUBCELLULAR LOCATION, MUTAGENESIS OF LYS-625, INTERACTION WITH PSE1.
[21]	"In vitro selection of DNA binding sites for ABF1 protein from Saccharomyces cerevisiae." Beinoraviciute-Kellner R., Lipps G., Krauss G. FEBS Lett. 579:4535-4540(2005) [PubMed] [Europe PMC] [Abstract] Cited for: DNA-BINDING.
[22]	"Asymmetric positioning of nucleosomes and directional establishment of transcriptionally silent chromatin by Saccharomyces cerevisiae silencers." Zou Y., Yu Q., Bi X. Mol. Cell. Biol. 26:7806-7819(2006) [PubMed] [Europe PMC] [Abstract] Cited for: DNA-BINDING, FUNCTION.
[23]	"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 SER-467 AND SER-720, MASS SPECTROMETRY. Strain: ADR376.
[24]	"Genome-wide analysis of transcriptional dependence and probable target sites for Abf1 and Rap1 in Saccharomyces cerevisiae." Yarragudi A., Parfrey L.W., Morse R.H. Nucleic Acids Res. 35:193-202(2007) [PubMed] [Europe PMC] [Abstract] Cited for: DNA-BINDING, FUNCTION.
[25]	"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 THR-189; SER-193 AND SER-618, MASS SPECTROMETRY.
[26]	"Rapid chip-based capillary electrophoretic mobility shift assay with negative pressure injection for the binding study of transcription factor Abf1 in Saccharomyces cerevisiae." Yang Q., Zhao Y.C., Xiong Q., Cheng J. Electrophoresis 29:5003-5009(2008) [PubMed] [Europe PMC] [Abstract] Cited for: DNA-BINDING.
[27]	"Genome-wide expression profiling, in vivo DNA binding analysis, and probabilistic motif prediction reveal novel Abf1 target genes during fermentation, respiration, and sporulation in yeast." Schlecht U., Erb I., Demougin P., Robine N., Borde V., van Nimwegen E., Nicolas A., Primig M. Mol. Biol. Cell 19:2193-2207(2008) [PubMed] [Europe PMC] [Abstract] Cited for: DNA-BINDING, FUNCTION.
[28]	"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 THR-189; SER-193; SER-258; SER-302; SER-304; SER-467; SER-554; SER-618 AND SER-720, MASS SPECTROMETRY.
[29]	"ABF1-binding sites promote efficient global genome nucleotide excision repair." Yu S., Smirnova J.B., Friedberg E.C., Stillman B., Akiyama M., Owen-Hughes T., Waters R., Reed S.H. J. Biol. Chem. 284:966-973(2009) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION.
[30]	"Blurring of high-resolution data shows that the effect of intrinsic nucleosome occupancy on transcription factor binding is mostly regional, not local." Goh W.S., Orlov Y., Li J., Clarke N.D. PLoS Comput. Biol. 6:E1000649-E1000649(2010) [PubMed] [Europe PMC] [Abstract] Cited for: DNA-BINDING.
[31]	"Extensive role of the general regulatory factors, Abf1 and Rap1, in determining genome-wide chromatin structure in budding yeast." Ganapathi M., Palumbo M.J., Ansari S.A., He Q., Tsui K., Nislow C., Morse R.H. Nucleic Acids Res. 39:2032-2044(2011) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	X16385 Genomic DNA. Translation: CAA34421.1. X51654 Genomic DNA. Translation: CAA35966.1. M29067 Genomic DNA. Translation: AAA66311.1. M63578 Genomic DNA. Translation: AAA34823.1. S93804 Genomic DNA. Translation: AAB22002.1. Z28111 Genomic DNA. Translation: CAA81951.1. X77511 Genomic DNA. Translation: CAA54647.1. BK006944 Genomic DNA. Translation: DAA09046.1.
PIR	S29870.
RefSeq	NP_012810.1. NM_001179678.1.
3D structure databases
ProteinModelPortal	P14164.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-2199N.
IntAct	P14164. 26 interactions.
MINT	MINT-2783533.
STRING	4932.YKL112W.
Proteomic databases
PaxDb	P14164.
PeptideAtlas	P14164.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YKL112W; YKL112W; YKL112W.
GeneID	853748.
KEGG	sce:YKL112W.
Organism-specific databases
SGD	S000001595. ABF1.
Phylogenomic databases
eggNOG	NOG43177.
KO	K09249.
OMA	ACHLKNC.
OrthoDB	EOG49PF7R.
Gene expression databases
Genevestigator	P14164.
GermOnline	YKL112W. Saccharomyces cerevisiae.
Family and domain databases
InterPro	IPR006774. BAF1_ABF1. [Graphical view]
Pfam	PF04684. BAF1_ABF1. 2 hits. [Graphical view]
ProtoNet	Search...
Other
NextBio	974810.

Entry information

Entry name

ABF1_YEAST

Accession

Primary (citable) accession number: P14164
Secondary accession number(s): D6VXH6

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 1, 1990
Last sequence update:	October 5, 2010
Last modified:	April 3, 2013
This is version 120 of the entry and version 4 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program