UniProt Accession

 DDX41_HUMAN; Q9UJV9; B2RDC8; Q96BK6; Q96K05; Q9NT96; Q9NW04 

Genbank Protein ID

 AF195417; AK001255; AK027768; AK315491; CH471195; BC015476; AL137455; BX641072 

Genbank Nucleotide ID

 AAF04150.1; BAA91585.1; BAB55355.1; BAG37875.1; EAW84981.1; AAH15476.1; CAB70746.1; CAE46035.1 

Protein Name

 Probable ATP-dependent RNA helicase DDX41 

Protein Synonyms/Alias

 DEAD box protein 41; DEAD box protein abstrakt homolog 

Gene Name

 DDX41 

Gene Synonyms/Alias

 ABS 

Created Date

 July 27, 2013 

Organism

 Homo sapiens (Human) 

NCBI Taxa ID

 9606 

Lysine Modification

Position	Peptide	Type	References
49	RRQLLLQKLLQRRRK	ubiquitination	[1, 2]
130	GRALMSVKEMAKGIT	ubiquitination	[3]
143	ITYDDPIKTSWTPPR	ubiquitination	[3]
199	ILRGLKKKGIHHPTP	ubiquitination	[3]
254	EKRLPFSKREGPYGL	ubiquitination	[3]
330	RLMDLLQKKMVSLDI	ubiquitination	[3]
331	LMDLLQKKMVSLDIC	ubiquitination	[3]
381	FSATMPKKIQNFAKS	ubiquitination	[3]
392	FAKSALVKPVTINVG	ubiquitination	[3]
442	VLIFAEKKADVDAIH	ubiquitination	[3]
466	AVAIHGGKDQEERTK	ubiquitination	[3]
473	KDQEERTKAIEAFRE	ubiquitination	[3]
538	IATTFINKACDESVL	ubiquitination	[3]
556	KALLLEAKQKVPPVL	ubiquitination	[3]
597	HRITDCPKLEAMQTK	ubiquitination	[3]
604	KLEAMQTKQVSNIGR	ubiquitination	[3]

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] 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]
 [3] 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] 

Functional Description

 Probable ATP-dependent RNA helicase. Is required during post-transcriptional gene expression. May be involved in pre-mRNA splicing. 

Sequence Annotation

 DOMAIN 212 396 Helicase ATP-binding.
 DOMAIN 407 567 Helicase C-terminal.
 NP_BIND 225 232 ATP (By similarity).
 ZN_FING 580 597 CCHC-type.
 MOTIF 181 209 Q motif.
 MOTIF 344 347 DEAD box.
 MOD_RES 21 21 Phosphoserine.
 MOD_RES 23 23 Phosphoserine.  

Keyword

 3D-structure; ATP-binding; Complete proteome; Helicase; Hydrolase; Metal-binding; mRNA processing; mRNA splicing; Nucleotide-binding; Nucleus; Phosphoprotein; Reference proteome; RNA-binding; Spliceosome; Zinc; Zinc-finger. 

Sequence Source

 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 

Protein Length

 622 AA 

Protein Sequence

Gene Ontology

 GO:0071013; C:catalytic step 2 spliceosome; IDA:UniProtKB.
 GO:0005783; C:endoplasmic reticulum; IEA:Compara.
 GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
 GO:0008026; F:ATP-dependent helicase activity; IEA:InterPro.
 GO:0003677; F:DNA binding; IEA:Compara.
 GO:0003723; F:RNA binding; IEA:UniProtKB-KW.
 GO:0008270; F:zinc ion binding; IEA:InterPro.
 GO:0006915; P:apoptotic process; TAS:ProtInc.
 GO:0035458; P:cellular response to interferon-beta; IEA:Compara.
 GO:0051607; P:defense response to virus; IEA:Compara.
 GO:0000398; P:mRNA splicing, via spliceosome; IC:UniProtKB.
 GO:0007275; P:multicellular organismal development; TAS:ProtInc.
 GO:0045944; P:positive regulation of transcription from RNA polymerase II promoter; IEA:Compara. 

Interpro

 IPR011545; DNA/RNA_helicase_DEAD/DEAH_N.
 IPR014001; Helicase_ATP-bd.
 IPR001650; Helicase_C.
 IPR027417; P-loop_NTPase.
 IPR014014; RNA_helicase_DEAD_Q_motif.
 IPR001878; Znf_CCHC. 

Pfam

 PF00270; DEAD
 PF00271; Helicase_C 

SMART

 SM00487; DEXDc
 SM00490; HELICc
 SM00343; ZnF_C2HC 

PROSITE

 PS00039; DEAD_ATP_HELICASE
 PS51192; HELICASE_ATP_BIND_1
 PS51194; HELICASE_CTER
 PS51195; Q_MOTIF
 PS50158; ZF_CCHC 

PRINTS