CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-022106
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Lymphoid-specific helicase 
Protein Synonyms/Alias
 Proliferation-associated SNF2-like protein; SWI/SNF2-related matrix-associated actin-dependent regulator of chromatin subfamily A member 6 
Gene Name
 HELLS 
Gene Synonyms/Alias
 PASG; SMARCA6; Nbla10143 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
74RLQHLLEKSNIYSKFubiquitination[1, 2, 3]
80EKSNIYSKFLLTKMEubiquitination[1, 3]
85YSKFLLTKMEQQQLEubiquitination[2]
155LSVAKKNKKENEDENubiquitination[2]
177VEDLQKNKDSNSIIKubiquitination[2]
184KDSNSIIKDRLSETVubiquitination[4]
196ETVRQNTKFFFDPVRubiquitination[2]
204FFFDPVRKCNGQPVPubiquitination[2, 5]
216PVPFQQPKHFTGGVMubiquitination[2]
474VVYAPLSKKQEIFYTubiquitination[2]
475VYAPLSKKQEIFYTAubiquitination[2, 5]
520RKSINYSKIDDFPNEubiquitination[2, 4, 5]
569NIMMLLRKCCNHPYLmethylation[6]
612DRMLPELKKRGHKVLubiquitination[2]
613RMLPELKKRGHKVLLubiquitination[2]
715CHRIGQTKPVVVYRLubiquitination[2, 5, 7]
731TANTIDQKIVERAAAubiquitination[2, 5, 7]
749LEKLIIHKNHFKGGQubiquitination[2]
753IIHKNHFKGGQSGLNubiquitination[2, 5, 8]
763QSGLNLSKNFLDPKEubiquitination[2, 4, 5]
769SKNFLDPKELMELLKubiquitination[2]
776KELMELLKSRDYEREubiquitination[2, 4]
795REKVISDKDLELLLDubiquitination[2, 4]
817MNASGPIKEKMGIFKubiquitination[2, 4]
819ASGPIKEKMGIFKILubiquitination[2]
Reference
 [1] A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles.
 Wagner SA, Beli P, Weinert BT, Nielsen ML, Cox J, Mann M, Choudhary C.
 Mol Cell Proteomics. 2011 Oct;10(10):M111.013284. [PMID: 21890473]
 [2] Refined preparation and use of anti-diglycine remnant (K-ε-GG) antibody enables routine quantification of 10,000s of ubiquitination sites in single proteomics experiments.
 Udeshi ND, Svinkina T, Mertins P, Kuhn E, Mani DR, Qiao JW, Carr SA.
 Mol Cell Proteomics. 2013 Mar;12(3):825-31. [PMID: 23266961]
 [3] hCKSAAP_UbSite: improved prediction of human ubiquitination sites by exploiting amino acid pattern and properties.
 Chen Z, Zhou Y, Song J, Zhang Z.
 Biochim Biophys Acta. 2013 Aug;1834(8):1461-7. [PMID: 23603789]
 [4] Systematic and quantitative assessment of the ubiquitin-modified proteome.
 Kim W, Bennett EJ, Huttlin EL, Guo A, Li J, Possemato A, Sowa ME, Rad R, Rush J, Comb MJ, Harper JW, Gygi SP.
 Mol Cell. 2011 Oct 21;44(2):325-40. [PMID: 21906983]
 [5] Integrated proteomic analysis of post-translational modifications by serial enrichment.
 Mertins P, Qiao JW, Patel J, Udeshi ND, Clauser KR, Mani DR, Burgess MW, Gillette MA, Jaffe JD, Carr SA.
 Nat Methods. 2013 Jul;10(7):634-7. [PMID: 23749302]
 [6] Large-scale global identification of protein lysine methylation in vivo.
 Cao XJ, Arnaudo AM, Garcia BA.
 Epigenetics. 2013 May 1;8(5):477-85. [PMID: 23644510]
 [7] Proteome-wide identification of ubiquitylation sites by conjugation of engineered lysine-less ubiquitin.
 Oshikawa K, Matsumoto M, Oyamada K, Nakayama KI.
 J Proteome Res. 2012 Feb 3;11(2):796-807. [PMID: 22053931]
 [8] Methods for quantification of in vivo changes in protein ubiquitination following proteasome and deubiquitinase inhibition.
 Udeshi ND, Mani DR, Eisenhaure T, Mertins P, Jaffe JD, Clauser KR, Hacohen N, Carr SA.
 Mol Cell Proteomics. 2012 May;11(5):148-59. [PMID: 22505724] 
Functional Description
 Plays an essential role in normal development and survival. Involved in regulation of the expansion or survival of lymphoid cells. Required for de novo or maintenance DNA methylation. May control silencing of the imprinted CDKN1C gene through DNA methylation. May play a role in formation and organization of heterochromatin, implying a functional role in the regulation of transcription and mitosis (By similarity). 
Sequence Annotation
 DOMAIN 235 403 Helicase ATP-binding.
 DOMAIN 603 767 Helicase C-terminal.
 NP_BIND 248 255 ATP (By similarity).
 MOTIF 354 357 DEAH box.  
Keyword
 Alternative splicing; ATP-binding; Cell cycle; Cell division; Coiled coil; Complete proteome; Developmental protein; Helicase; Hydrolase; Mitosis; Nucleotide-binding; Nucleus; Polymorphism; Reference proteome; Transcription; Transcription regulation. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 838 AA 
Protein Sequence
MPAERPAGSG GSEAPAMVEQ LDTAVITPAM LEEEEQLEAA GLERERKMLE KARMSWDRES 60
TEIRYRRLQH LLEKSNIYSK FLLTKMEQQQ LEEQKKKEKL ERKKESLKVK KGKNSIDASE 120
EKPVMRKKRG REDESYNISE VMSKEEILSV AKKNKKENED ENSSSTNLCV EDLQKNKDSN 180
SIIKDRLSET VRQNTKFFFD PVRKCNGQPV PFQQPKHFTG GVMRWYQVEG MEWLRMLWEN 240
GINGILADEM GLGKTVQCIA TIALMIQRGV PGPFLVCGPL STLPNWMAEF KRFTPDIPTM 300
LYHGTQEERQ KLVRNIYKRK GTLQIHPVVI TSFEIAMRDR NALQHCYWKY LIVDEGHRIK 360
NMKCRLIREL KRFNADNKLL LTGTPLQNNL SELWSLLNFL LPDVFDDLKS FESWFDITSL 420
SETAEDIIAK EREQNVLHML HQILTPFLLR RLKSDVALEV PPKREVVVYA PLSKKQEIFY 480
TAIVNRTIAN MFGSSEKETI ELSPTGRPKR RTRKSINYSK IDDFPNELEK LISQIQPEVD 540
RERAVVEVNI PVESEVNLKL QNIMMLLRKC CNHPYLIEYP IDPVTQEFKI DEELVTNSGK 600
FLILDRMLPE LKKRGHKVLL FSQMTSMLDI LMDYCHLRDF NFSRLDGSMS YSEREKNMHS 660
FNTDPEVFIF LVSTRAGGLG INLTAADTVI IYDSDWNPQS DLQAQDRCHR IGQTKPVVVY 720
RLVTANTIDQ KIVERAAAKR KLEKLIIHKN HFKGGQSGLN LSKNFLDPKE LMELLKSRDY 780
EREIKGSREK VISDKDLELL LDRSDLIDQM NASGPIKEKM GIFKILENSE DSSPECLF 838 
Gene Ontology
 GO:0005721; C:centromeric heterochromatin; ISS:UniProtKB.
 GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
 GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
 GO:0003682; F:chromatin binding; IEA:Compara.
 GO:0003677; F:DNA binding; IEA:InterPro.
 GO:0004386; F:helicase activity; IEA:UniProtKB-KW.
 GO:0051301; P:cell division; IEA:UniProtKB-KW.
 GO:0031508; P:centromeric heterochromatin assembly; ISS:UniProtKB.
 GO:0046651; P:lymphocyte proliferation; ISS:UniProtKB.
 GO:0010216; P:maintenance of DNA methylation; ISS:UniProtKB.
 GO:0006346; P:methylation-dependent chromatin silencing; ISS:UniProtKB.
 GO:0007067; P:mitosis; IEA:UniProtKB-KW.
 GO:0007275; P:multicellular organismal development; ISS:UniProtKB.
 GO:0043066; P:negative regulation of apoptotic process; IEA:Compara.
 GO:0006351; P:transcription, DNA-dependent; IEA:UniProtKB-KW.
 GO:0001655; P:urogenital system development; IEA:Compara. 
Interpro
 IPR014001; Helicase_ATP-bd.
 IPR001650; Helicase_C.
 IPR027417; P-loop_NTPase.
 IPR000330; SNF2_N. 
Pfam
 PF00271; Helicase_C
 PF00176; SNF2_N 
SMART
 SM00487; DEXDc
 SM00490; HELICc 
PROSITE
 PS51192; HELICASE_ATP_BIND_1
 PS51194; HELICASE_CTER 
PRINTS