Protein Overview: ABF1

General Information:
Name(s) found:	ABF1 / YKL112W [SGD]
Description(s) found: SHOW ONLY BEST	gi\|6322737\|ref\|NP_012810.1\| DNA binding protein with possible chromatin-reorganizing activity involved in transcriptional activation, gene silencing, and DNA replication and repair; Abf1p [Saccharomyces cerevisiae] [NCBI NR] gi\|486187\|emb\|CAA81951.1\| ABF1 [Saccharomyces cerevisiae] [NCBI NR] pir\|\|S29870 DNA-binding protein BAF1 - yeast (Saccharomyces cerevisiae) [NCBI NR] gi\|1680183\|gb\|AAB22002.1\|S93804_2 BAF1/ABF1/YKL505 gene product [Saccharomyces cerevisiae] [NCBI NR] ABF1 ARS-binding factor [mips] DNA binding protein with possible chromatin-reorganizing activity involved in transcriptional activation, gene silencing, and DNA replication and repair [SGD] ABF1, Chr XI from 226213-228408 [yeast_orfs2] Chr XI from 226213-228408 [yeastorf3.fasta] Chr XI from 226212-228407 [yeastorf4.fasta] ABF1 SGDID:S0001595, Chr XI from 226216-228411, Verified ORF [yeastflysequest.fasta] Abf1p [Saccharomyces cerevisiae]gi\|486187\|emb\|CAA81951.1\| ABF1 [Saccharomyces cerevisiae]gi\|320637\|pir\|\|S29870 DNA-binding protein BAF1 - yeast (Saccharomyces cerevisiae)gi\|1680183\|gb\|AAB22002.1\| BAF1/ABF1/YKL505 gene product [Saccharomyces cerevisiae] [nrdb_11152004_Chlamydomonas] ABF1 SGDID:S000001595, Chr XI from 226214-228409, Verified ORF, "DNA binding protein with possible chromatin-reorganizing activity involved in transcriptional activation, gene silencing, and DNA replication and repair" [SGD_S-cerevisiae_na_12-16-2005_con_reversed.fasta] DNA binding protein with possible chromatin-reorganizing activity involved in transcriptional activation, gene silencing, and DNA replication and repair; Abf1p [Saccharomyces cerevisiae] [nr-271106-contam.fasta] ABF1 [Saccharomyces cerevisiae] [nr-271106-contam.fasta] BAF1/ABF1/YKL505 gene product [Saccharomyces cerevisiae] [nr-271106-contam.fasta] [chemostatdb.fasta] ABF1 SGDID:S000001595, Chr XI from 226570-228765, Genome Release 64-1-1, Verified ORF, "DNA binding protein with possible chromatin-reorganizing activity involved in transcriptional activation, gene silencing, and DNA replication and repair" [yeast-030211-contam.fasta] ABF1 SGDID:S000001595, Chr XI from 226570-228765, Genome Release 64-2-1, Verified ORF, "DNA binding protein with possible chromatin-reorganizing activity; involved in transcriptional activation, gene silencing, and DNA replication and repair" [20141208_orf_trans.fasta] YKL112W SGDID:S000001595, Chr XI from 226570-228765, Genome Release 64-1-1, Verified ORF, "DNA binding protein with possible chromatin-reorganizing activity involved in transcriptional activation, gene silencing, and DNA replication and repair" [2016-01-SGD_Yeast_Contam_Riffle_20140507-Ska-Hec-110-tubulin.fasta]
Organism:	Saccharomyces cerevisiae
Length:	731 amino acids
Gene Ontology:
Cellular Component:	nucleus [IDA][IMP] nuclear chromatin [TAS] nucleotide-excision repair factor 4 complex [IPI]
Biological Process:	negative regulation of transcription from RNA polymerase II promoter [IMP] chromatin remodeling [IMP] nucleotide-excision repair, DNA damage recognition [IDA][IMP][IPI] DNA replication [IDA][TAS] chromatin silencing at silent mating-type cassette [IMP][TAS] positive regulation of transcription from RNA polymerase II promoter [IMP]
Molecular Function:	DNA binding [IDA][TAS] transcription factor activity [TAS] DNA bending activity [IDA] chromatin binding [IDA][IMP][TAS] transcription activator activity [IDA][IMP] transcription repressor activity [IMP]

Sequence:

Sequence:
[PDR BLAST]
[ProtParam]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDKLVVNYYE YKHPIINKDL AIGAHGGKKF PTLGAWYDVI NEYEFQTRCP IILKNSHRNK  60
   61 HFTFACHLKN CPFKVLLSYA GNAASSETSS PSANNNTNPP GTPDHIHHHS NNMNNEDNDN 120
  121 NNGSNNKVSN DSKLDFVTDD LEYHLANTHP DDTNDKVESR SNEVNGNNDD DADANNIFKQ 180
  181 QGVTIKNDTE DDSINKASID RGLDDESGPT HGNDSGNHRH NEEDDVHTQM TKNYSDVVND 240
  241 EDINVAIANA VANVDSQSNN KHDGKDDDAT NNNDGQDNNT NNDHNNNSNI NNNNVGSHGI 300
  301 SSHSPSSIRD TSMNLDVFNS ATDDIPGPFV VTKIEPYHSH PLEDNLSLGK FILTKIPKIL 360
  361 QNDLKFDQIL ESSYNNSNHT VSKFKVSHYV EESGLLDILM QRYGLTAEDF EKRLLSQIAR 420
  421 RITTYKARFV LKKKKMGEYN DLQPSSSSNN NNNNDGELSG TNLRSNSIDY AKHQEISSAG 480
  481 TSSNTTKNVN NNKNDSNDDN NGNNNNDASN LMESVLDKTS SHRYQPKKMP SVNKWSKPDQ 540
  541 ITHSDVSMVG LDESNDGGNE NVHPTLAEVD AQEARETAQL AIDKINSYKR SIDDKNGDGH 600
  601 NNSSRNVVDE NLINDMDSED AHKSKRQHLS DITLEERNED DKLPHEVAEQ LRLLSSHLKE 660
  661 VENLHQNNDD DVDDVMVDVD VESQYNKNTT HHNNHHSQPH HDEEDVAGLI GKADDEEDLS 720
  721 DENIQPELRG Q

Protein Complex Data

	PUBLICATION	TOPOLOGY	COCOMPLEXED PROTEINS
View Details	Krogan NJ, et al. (2006)		ABF1 SRL2 YHL009W-B
View Details	Qiu et al. (2008)		ABF1 ARP4 ELC1 HTZ1 KAE1 MCM1 MCM4 MCM6 NHP6A PCC1 POB3 RAD1 RAD10 RAD14 RAD16 RAD23 RAD4 RAD7 RAP1 SAS3 SLD3 SMC4 SSL1 SSL2 TBF1 TFB2 TFB3

Mass Spectrometry Data

The following runs contain data for this protein:

	BAIT	COMMENTS	PUBLICATION
View Run	RPA135	No Comments	Schneider, DA, et al. (2006)
View Run	MLP2	#32 Asynchronous Prep-No Phosphopeptide enrichment	Keck JM, et al. (2011)
View Run	MLP2	#03 Alpha Factor Prep1-TiO2 Flowthrough	Keck JM, et al. (2011)

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	RPC19	ABF1	1	Unpublished Fields Lab Data

Microscopy / Localization Data

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	PROTEIN(S)	PUBLICATION
View Data	ABF1	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..78]	deduced	N/A	No confident structure predictions are available.
2	View Details	[79..176]	ORFEUS	7.56	No description for 1l8mA was found.
3	View Details	[177..245]	ORFEUS	7.56	No description for 1l8mA was found.
4	View Details	[246..320]	ORFEUS	7.56	No description for 1l8mA was found.
5	View Details	[321..481] [518..560]	ORFEUS	7.09	Monomeric isocitrate dehydrogenase
6	View Details	[482..517] [561..731]	ORFEUS	7.09	Monomeric isocitrate dehydrogenase

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