CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-004872
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 ATP-dependent RNA helicase HCA4 
Protein Synonyms/Alias
 DEAD box protein 4; Helicase CA4; Helicase UF1 
Gene Name
 HCA4 
Gene Synonyms/Alias
 DBP4; ECM24; YJL033W; J1250 
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
44ITKAKFFKDLPISDPacetylation[1]
570DDDFISVKRKDHEINacetylation[2]
572DFISVKRKDHEINEAubiquitination[3]
Reference
 [1] 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]
 [2] mChIP-KAT-MS, a method to map protein interactions and acetylation sites for lysine acetyltransferases.
 Mitchell L, Huard S, Cotrut M, Pourhanifeh-Lemeri R, Steunou AL, Hamza A, Lambert JP, Zhou H, Ning Z, Basu A, Côté J, Figeys DA, Baetz K.
 Proc Natl Acad Sci U S A. 2013 Apr 23;110(17):E1641-50. [PMID: 23572591]
 [3] Identification, analysis, and prediction of protein ubiquitination sites.
 Radivojac P, Vacic V, Haynes C, Cocklin RR, Mohan A, Heyen JW, Goebl MG, Iakoucheva LM.
 Proteins. 2010 Feb 1;78(2):365-80. [PMID: 19722269] 
Functional Description
 ATP-dependent RNA helicase required for ribosome biogenesis. Involved in the release of U14 snoRNA in pre-ribosomal complexes. Required for pre-rRNA cleavage at site A2. 
Sequence Annotation
 DOMAIN 72 246 Helicase ATP-binding.
 DOMAIN 278 437 Helicase C-terminal.
 NP_BIND 85 92 ATP.
 MOTIF 41 69 Q motif.
 MOTIF 194 197 DEAD box.
 MOD_RES 692 692 Phosphoserine.
 MOD_RES 710 710 Phosphoserine.
 MOD_RES 714 714 Phosphoserine.
 MOD_RES 743 743 Phosphoserine.  
Keyword
 ATP-binding; Complete proteome; Helicase; Hydrolase; Nucleotide-binding; Nucleus; Phosphoprotein; Reference proteome; Ribosome biogenesis; RNA-binding; rRNA processing. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 770 AA 
Protein Sequence
MAKKNRLNTT QRKTLRQKED EYIENLKTKI DEYDPKITKA KFFKDLPISD PTLKGLRESS 60
FIKLTEIQAD SIPVSLQGHD VLAAAKTGSG KTLAFLVPVI EKLYREKWTE FDGLGALIIS 120
PTRELAMQIY EVLTKIGSHT SFSAGLVIGG KDVKFELERI SRINILIGTP GRILQHLDQA 180
VGLNTSNLQM LVLDEADRCL DMGFKKTLDA IVSTLSPSRQ TLLFSATQSQ SVADLARLSL 240
TDYKTVGTHD VMDGSVNKEA STPETLQQFY IEVPLADKLD ILFSFIKSHL KCKMIVFLSS 300
SKQVHFVYET FRKMQPGISL MHLHGRQKQR ARTETLDKFN RAQQVCLFAT DVVARGIDFP 360
AVDWVVQVDC PEDVDTYIHR VGRCARYGKK GKSLIMLTPQ EQEAFLKRLN ARKIEPGKLN 420
IKQSKKKSIK PQLQSLLFKD PELKYLGQKA FISYVRSIYV QKDKQVFKFD ELPTEEFAYS 480
LGLPGAPKIK MKGMKTIEQA KERKNAPRQL AFLSKANEDG EVIEDKSKQP RTKYDKMFER 540
KNQTILSEHY LNITKAQAQE DEDDDFISVK RKDHEINEAE LPALTLPTSR RAQKKALSKK 600
ASLASKGNAS KLIFDDEGEA HPVYELEDEE EFHKRGDAEV QKTEFLTKES AVMADIDNID 660
KQVAKEKKQE KKRKRLEAMR REMEAAMEEE ISGDEEEGKT VAYLGTGNLS DDMSDGDMPD 720
SEGHLKKKAR TVDYSHGHNP SNSVDDDIIE VEEPQTLEDL ESLTAKLIQG 770 
Gene Ontology
 GO:0005730; C:nucleolus; IC:SGD.
 GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
 GO:0004004; F:ATP-dependent RNA helicase activity; IDA:SGD.
 GO:0003723; F:RNA binding; IEA:UniProtKB-KW.
 GO:0006364; P:rRNA processing; IMP:SGD. 
Interpro
 IPR011545; DNA/RNA_helicase_DEAD/DEAH_N.
 IPR025313; DUF4217.
 IPR014001; Helicase_ATP-bd.
 IPR001650; Helicase_C.
 IPR027417; P-loop_NTPase.
 IPR000629; RNA-helicase_DEAD-box_CS.
 IPR014014; RNA_helicase_DEAD_Q_motif. 
Pfam
 PF00270; DEAD
 PF13959; DUF4217
 PF00271; Helicase_C 
SMART
 SM00487; DEXDc
 SM00490; HELICc 
PROSITE
 PS00039; DEAD_ATP_HELICASE
 PS51192; HELICASE_ATP_BIND_1
 PS51194; HELICASE_CTER
 PS51195; Q_MOTIF 
PRINTS