CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-005042
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Transcription regulatory protein SNF2 
Protein Synonyms/Alias
 ATP-dependent helicase SNF2; Regulatory protein GAM1; Regulatory protein SWI2; SWI/SNF complex component SNF2; Transcription factor TYE3 
Gene Name
 SNF2 
Gene Synonyms/Alias
 GAM1; RIC1; SWI2; TYE3; YOR290C 
Created Date
 July 27, 2013 
Organism
 Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) 
NCBI Taxa ID
 559292 
Lysine Modification
Position
Peptide
Type
References
543LQLLPLQKAVRGHVLubiquitination[1, 2]
675IKLLDQTKDTRITHLubiquitination[2]
1028IMYQQMLKYRRLFIGmethylation[3]
1240GKVIQAGKFDNKSTSacetylation[4]
1244QAGKFDNKSTSEEQEacetylation[4]
1494PKPRTAGKTSVKSARacetylation[4, 5]
1498TAGKTSVKSARTSTRacetylation[4, 5]
Reference
 [1] Sites of ubiquitin attachment in Saccharomyces cerevisiae.
 Starita LM, Lo RS, Eng JK, von Haller PD, Fields S.
 Proteomics. 2012 Jan;12(2):236-40. [PMID: 22106047]
 [2] Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.
 Swaney DL, Beltrao P, Starita L, Guo A, Rush J, Fields S, Krogan NJ, Villén J.
 Nat Methods. 2013 Jul;10(7):676-82. [PMID: 23749301]
 [3] Identification of arginine- and lysine-methylation in the proteome of Saccharomyces cerevisiae and its functional implications.
 Pang CN, Gasteiger E, Wilkins MR.
 BMC Genomics. 2010 Feb 5;11:92. [PMID: 20137074]
 [4] Proteome-wide analysis of lysine acetylation suggests its broad regulatory scope in Saccharomyces cerevisiae.
 Henriksen P, Wagner SA, Weinert BT, Sharma S, Bacinskaja G, Rehman M, Juffer AH, Walther TC, Lisby M, Choudhary C.
 Mol Cell Proteomics. 2012 Nov;11(11):1510-22. [PMID: 22865919]
 [5] Gcn5 regulates the dissociation of SWI/SNF from chromatin by acetylation of Swi2/Snf2.
 Kim JH, Saraf A, Florens L, Washburn M, Workman JL.
 Genes Dev. 2010 Dec 15;24(24):2766-71. [PMID: 21159817] 
Functional Description
 Involved in transcriptional activation. Catalytic component of the SWI/SNF complex, an ATP-dependent chromatin- remodeling complex, which is required for the positive and negative regulation of gene expression of a large number of genes. It changes chromatin structure by altering DNA-histone contacts within a nucleosome, leading eventually to a change in nucleosome position, thus facilitating or repressing binding of gene-specific transcription factors. 
Sequence Annotation
 DOMAIN 247 282 QLQ.
 DOMAIN 588 661 HSA.
 DOMAIN 779 944 Helicase ATP-binding.
 DOMAIN 1091 1254 Helicase C-terminal.
 DOMAIN 1568 1638 Bromo.
 NP_BIND 792 799 ATP (By similarity).
 DNA_BIND 1446 1456 A.T hook 1.
 DNA_BIND 1502 1513 A.T hook 2.
 DNA_BIND 1516 1526 A.T hook 3.
 MOTIF 894 897 DEGH box.
 MOD_RES 358 358 Phosphoserine.
 MOD_RES 383 383 Phosphothreonine.
 MOD_RES 716 716 Phosphoserine.
 MOD_RES 1340 1340 Phosphoserine.  
Keyword
 3D-structure; Activator; ATP-binding; Bromodomain; Complete proteome; Helicase; Hydrolase; Nucleotide-binding; Nucleus; Phosphoprotein; Reference proteome; Repeat; Transcription; Transcription regulation. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 1703 AA 
Protein Sequence
MNIPQRQFSN EEVNRCYLRW QHLRNEHGMN APSVPEFIYL TKVLQFAAKQ RQELQMQRQQ 60
QGISGSQQNI VPNSSDQAEL PNNASSHISA SASPHLAPNM QLNGNETFST SAHQSPIMQT 120
QMPLNSNGGN NMLPQRQSSV GSLNATNFSP TPANNGENAA EKPDNSNHNN LNLNNSELQP 180
QNRSLQEHNI QDSNVMPGSQ INSPMPQQAQ MQQAQFQAQQ AQQAQQAQQA QQAQARLQQG 240
RRLPMTMFTA EQSELLKAQI TSLKCLVNRK PIPFEFQAVI QKSINHPPDF KRMLLSLSEF 300
ARRRQPTDQN NQSNLNGGNN TQQPGTNSHY NNTNTDNVSG LTRNAPLDSK DENFASVSPA 360
GPSSVHNAKN GTLDKNSQTV SGTPITQTES KKEENETISN VAKTAPNSNK THTEQNNPPK 420
PQKPVPLNVL QDQYKEGIKV VDIDDPDMMV DSFTMPNISH SNIDYQTLLA NSDHAKFTIE 480
PGVLPVGIDT HTATDIYQTL IALNLDTTVN DCLDKLLNDE CTESTRENAL YDYYALQLLP 540
LQKAVRGHVL QFEWHQNSLL TNTHPNFLSK IRNINVQDAL LTNQLYKNHE LLKLERKKTE 600
AVARLKSMNK SAINQYNRRQ DKKNKRLKFG HRLIATHTNL ERDEQKRAEK KAKERLQALK 660
ANDEEAYIKL LDQTKDTRIT HLLRQTNAFL DSLTRAVKDQ QKYTKEMIDS HIKEASEEVD 720
DLSMVPKMKD EEYDDDDDNS NVDYYNVAHR IKEDIKKQPS ILVGGTLKDY QIKGLQWMVS 780
LFNNHLNGIL ADEMGLGKTI QTISLLTYLY EMKNIRGPYL VIVPLSTLSN WSSEFAKWAP 840
TLRTISFKGS PNERKAKQAK IRAGEFDVVL TTFEYIIKER ALLSKVKWVH MIIDEGHRMK 900
NAQSKLSLTL NTHYHADYRL ILTGTPLQNN LPELWALLNF VLPKIFNSVK SFDEWFNTPF 960
ANTGGQDKIE LSEEETLLVI RRLHKVLRPF LLRRLKKDVE KELPDKVEKV VKCKMSALQQ 1020
IMYQQMLKYR RLFIGDQNNK KMVGLRGFNN QIMQLKKICN HPFVFEEVED QINPTRETND 1080
DIWRVAGKFE LLDRILPKLK ATGHRVLIFF QMTQIMDIME DFLRYINIKY LRLDGHTKSD 1140
ERSELLRLFN APDSEYLCFI LSTRAGGLGL NLQTADTVII FDTDWNPHQD LQAQDRAHRI 1200
GQKNEVRILR LITTNSVEEV ILERAYKKLD IDGKVIQAGK FDNKSTSEEQ EALLRSLLDA 1260
EEERRKKRES GVEEEEELKD SEINEILARN DEEMAVLTRM DEDRSKKEEE LGVKSRLLEK 1320
SELPDIYSRD IGAELKREES ESAAVYNGRG ARERKTATYN DNMSEEQWLR QFEVSDDEKN 1380
DKQARKQRTK KEDKSEAIDG NGEIKGENID ADNDGPRINN ISAEDRADTD LAMNDDDFLS 1440
KKRKAGRPRG RPKKVKLEGS ENSEPPALES SPVTGDNSPS EDFMDIPKPR TAGKTSVKSA 1500
RTSTRGRGRG RGRGRGRGRG RGRPPKARNG LDYVRTPAAA TSPIDIREKV AKQALDLYHF 1560
ALNYENEAGR KLSDIFLSKP SKALYPDYYM IIKYPVAFDN INTHIETLAY NSLKETLQDF 1620
HLIFSNARIY NTEGSVVYED SLELEKVVTK KYCEIMGDNS QLDFTEFDEQ YGTRPLVLPP 1680
VVTSSVAESF TDEADSSMTE ASV 1703 
Gene Ontology
 GO:0016514; C:SWI/SNF complex; IDA:SGD.
 GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
 GO:0008094; F:DNA-dependent ATPase activity; IDA:SGD.
 GO:0004386; F:helicase activity; IEA:UniProtKB-KW.
 GO:0070577; F:histone acetyl-lysine binding; IDA:SGD.
 GO:0031492; F:nucleosomal DNA binding; IDA:SGD.
 GO:0043044; P:ATP-dependent chromatin remodeling; IDA:SGD.
 GO:0044109; P:cellular alcohol catabolic process; IMP:SGD.
 GO:0006261; P:DNA-dependent DNA replication; IMP:SGD.
 GO:0006302; P:double-strand break repair; IMP:SGD.
 GO:0042766; P:nucleosome mobilization; IDA:SGD.
 GO:0031496; P:positive regulation of mating type switching; IMP:SGD.
 GO:0061412; P:positive regulation of transcription from RNA polymerase II promoter in response to amino acid starvation; IMP:SGD.
 GO:0042148; P:strand invasion; IMP:SGD.
 GO:0005987; P:sucrose catabolic process; IMP:SGD.
 GO:0006351; P:transcription, DNA-dependent; IEA:UniProtKB-KW. 
Interpro
 IPR017956; AT_hook_DNA-bd_motif.
 IPR001487; Bromodomain.
 IPR018359; Bromodomain_CS.
 IPR014978; Gln-Leu-Gln_QLQ.
 IPR014012; Helicase/SANT-assoc_DNA-bd.
 IPR014001; Helicase_ATP-bd.
 IPR001650; Helicase_C.
 IPR027417; P-loop_NTPase.
 IPR000330; SNF2_N. 
Pfam
 PF00439; Bromodomain
 PF00271; Helicase_C
 PF08880; QLQ
 PF00176; SNF2_N 
SMART
 SM00384; AT_hook
 SM00297; BROMO
 SM00487; DEXDc
 SM00490; HELICc
 SM00951; QLQ 
PROSITE
 PS00633; BROMODOMAIN_1
 PS50014; BROMODOMAIN_2
 PS51192; HELICASE_ATP_BIND_1
 PS51194; HELICASE_CTER
 PS51204; HSA
 PS51666; QLQ 
PRINTS
 PR00503; BROMODOMAIN.