CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-014590
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 ATP-dependent RNA helicase DDX1 
Protein Synonyms/Alias
 DEAD box protein 1 
Gene Name
 Ddx1 
Gene Synonyms/Alias
  
Created Date
 July 27, 2013 
Organism
 Rattus norvegicus (Rat) 
NCBI Taxa ID
 10116 
Lysine Modification
Position
Peptide
Type
References
358DDLVSTGKLNLSQVRacetylation[1]
596NVTLPDEKQNYVHRIacetylation[1]
Reference
 [1] Proteomic analysis of lysine acetylation sites in rat tissues reveals organ specificity and subcellular patterns.
 Lundby A, Lage K, Weinert BT, Bekker-Jensen DB, Secher A, Skovgaard T, Kelstrup CD, Dmytriyev A, Choudhary C, Lundby C, Olsen JV.
 Cell Rep. 2012 Aug 30;2(2):419-31. [PMID: 22902405] 
Functional Description
 Acts as an ATP-dependent RNA helicase, able to unwind both RNA-RNA and RNA-DNA duplexes. Possesses 5' single-stranded RNA overhang nuclease activity. Possesses ATPase activity on various RNA, but not DNA polynucleotides. May play a role in RNA clearance at DNA double-strand breaks (DSBs), thereby facilitating the template-guided repair of transcriptionally active regions of the genome. Together with RELA, acts as a coactivator to enhance NF-kappa-B-mediated transcriptional activation. Acts as a positive transcriptional regulator of cyclin CCND2 expression. Binds to the cyclin CCND2 promoter region. Associates with chromatin at the NF- kappa-B promoter region via association with RELA. Binds to poly(A) RNA. May be involved in 3'-end cleavage and polyadenylation of pre-mRNAs (By similarity). 
Sequence Annotation
 DOMAIN 2 428 Helicase ATP-binding.
 DOMAIN 70 247 B30.2/SPRY.
 DOMAIN 493 681 Helicase C-terminal.
 NP_BIND 46 53 ATP (By similarity).
 REGION 1 525 Necessary for interaction with RELA (By
 REGION 1 295 Necessary for interaction with HNRNPK (By
 REGION 525 740 Necessary for interaction with HNRNPK (By
 MOTIF 370 373 DEAD box.
 MOD_RES 239 239 N6-acetyllysine (By similarity).
 MOD_RES 268 268 N6-acetyllysine (By similarity).
 MOD_RES 281 281 N6-acetyllysine (By similarity).
 MOD_RES 481 481 Phosphoserine (By similarity).  
Keyword
 Acetylation; Activator; ATP-binding; Complete proteome; Cytoplasm; DNA-binding; Exonuclease; Helicase; Hydrolase; mRNA processing; Nuclease; Nucleotide-binding; Nucleus; Phosphoprotein; Reference proteome; RNA-binding; Transcription; Transcription regulation. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 740 AA 
Protein Sequence
MAAFSEMGVM PEIAQAVEEM DWLLPTDIQA ESIPLILGGG DVLMAAETGS GKTGAFSIPV 60
IQIVYETLKD QQEGKKGKAT IKTGASVLNK WQMNPYDRGS AFAIGSDGLC CQSREVKEWH 120
GCRATRGLLR GKHYYEVSCH DQGLCRVGWS TMQASLDLGT DKFGFGFGGT GKKSHNKQFD 180
NYGEEFTMHD TIGCYLDIDK GHVKFSKNGK DLGLAFEIPA HIKNQALFPA CVLKNAELKF 240
NFGEEEFKFP PKDGFVALSK APDSYVVKSQ HTGNAQVSQT KFLPNAPKAL IVEPSRELAE 300
QTLNNVKQFK KYIDNPKLRE LLIIGGVAAR DQLSVLDNGV DIVVGTPGRL DDLVSTGKLN 360
LSQVRFLVLD EADGLLSQGY SDFINRMHNQ IPQITSDGKR LQVIVCSATL HSFDVKKLSE 420
KIMHFPTWVD LKGEDSVPDT VHHVVVPVNP KTDRLWERLG KNHIRTDDVH AKDNTRPGAN 480
SPEMWSEAIK ILKGEYAVRA IKEHKMDQAI IFCRTKIDCD NLEQYFMQQG GGPDKKGHQF 540
SCVCLHGDRK PHERKQNLER FKKGDVRFLI CTDVAARGID IHGVPYVINV TLPDEKQNYV 600
HRIGRVGRAE RMGLAISLVA TEKEKVWYHV CSNRGKGCYN TRLKEDGGCT IWYNEMQLLS 660
EIEEHLNCTI SQVEPDIKVP VDEFDGKVTY GQKRAAGGGN YKGHVDILAP TVQELAALEK 720
EAQTSFLHLG YLPNQLFRTF 740 
Gene Ontology
 GO:0071920; C:cleavage body; ISS:UniProtKB.
 GO:0010494; C:cytoplasmic stress granule; ISS:UniProtKB.
 GO:0072669; C:tRNA-splicing ligase complex; ISS:UniProtKB.
 GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
 GO:0008026; F:ATP-dependent helicase activity; ISS:UniProtKB.
 GO:0003682; F:chromatin binding; ISS:UniProtKB.
 GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
 GO:0033677; F:DNA/RNA helicase activity; ISS:UniProtKB.
 GO:0003725; F:double-stranded RNA binding; IEA:Compara.
 GO:0004527; F:exonuclease activity; IEA:UniProtKB-KW.
 GO:0004518; F:nuclease activity; ISS:UniProtKB.
 GO:0008143; F:poly(A) RNA binding; ISS:UniProtKB.
 GO:0003712; F:transcription cofactor activity; ISS:UniProtKB.
 GO:0032508; P:DNA duplex unwinding; ISS:UniProtKB.
 GO:0006302; P:double-strand break repair; ISS:UniProtKB.
 GO:0006397; P:mRNA processing; IEA:UniProtKB-KW.
 GO:0007275; P:multicellular organismal development; IEA:Compara.
 GO:0006355; P:regulation of transcription, DNA-dependent; IEA:UniProtKB-KW.
 GO:0043330; P:response to exogenous dsRNA; IEA:Compara.
 GO:0009615; P:response to virus; IEA:Compara.
 GO:0006351; P:transcription, DNA-dependent; IEA:UniProtKB-KW. 
Interpro
 IPR001870; B30.2/SPRY.
 IPR008985; ConA-like_lec_gl_sf.
 IPR011545; DNA/RNA_helicase_DEAD/DEAH_N.
 IPR014001; Helicase_ATP-bd.
 IPR001650; Helicase_C.
 IPR027417; P-loop_NTPase.
 IPR014014; RNA_helicase_DEAD_Q_motif.
 IPR018355; SPla/RYanodine_receptor_subgr.
 IPR003877; SPRY_rcpt. 
Pfam
 PF00270; DEAD
 PF00271; Helicase_C
 PF00622; SPRY 
SMART
 SM00487; DEXDc
 SM00490; HELICc
 SM00449; SPRY 
PROSITE
 PS50188; B302_SPRY
 PS00039; DEAD_ATP_HELICASE
 PS51192; HELICASE_ATP_BIND_1
 PS51194; HELICASE_CTER
 PS51195; Q_MOTIF 
PRINTS