CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-007890
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 ATP-dependent RNA helicase DOB1 
Protein Synonyms/Alias
 mRNA transport regulator MTR4 
Gene Name
 MTR4 
Gene Synonyms/Alias
 DOB1; YJL050W; J1158 
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
97SREVDASKGLTNSETacetylation[1]
112LQVEQDGKVRLSHQVacetylation[1]
428ELALKMSKLDFNSDDacetylation[1]
864HDLHEDMKQLKRKISacetylation[1]
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] 
Functional Description
 ATP-dependent RNA helicase required for the 3'-end formation of 5.8S RNA. Cofactor for the exosome complex that unwinds secondary structure in pre-rRNA. Required for nucleocytoplasmic transport of mRNA. May serve as a chaperone which translocates or normalizes the structure of mRNAs in preparation for export. Component of the TRAMP complex which has a poly(A) RNA polymerase activity and is involved in a post- transcriptional quality control mechanism limiting inappropriate expression of genetic information. Polyadenylation is required for the degradative activity of the exosome on several of its nuclear RNA substrates. 
Sequence Annotation
 DOMAIN 158 314 Helicase ATP-binding.
 DOMAIN 393 597 Helicase C-terminal.
 NP_BIND 171 178 ATP (Potential).
 MOTIF 262 265 DEVH box.
 MOD_RES 34 34 Phosphothreonine.
 MOD_RES 84 84 Phosphoserine.
 MOD_RES 843 843 Phosphoserine.  
Keyword
 3D-structure; ATP-binding; Complete proteome; Helicase; Hydrolase; Nucleotide-binding; Nucleus; Phosphoprotein; Reference proteome; rRNA processing. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 1073 AA 
Protein Sequence
MDSTDLFDVF EETPVELPTD SNGEKNADTN VGDTPDHTQD KKHGLEEEKE EHEENNSENK 60
KIKSNKSKTE DKNKKVVVPV LADSFEQEAS REVDASKGLT NSETLQVEQD GKVRLSHQVR 120
HQVALPPNYD YTPIAEHKRV NEARTYPFTL DPFQDTAISC IDRGESVLVS AHTSAGKTVV 180
AEYAIAQSLK NKQRVIYTSP IKALSNQKYR ELLAEFGDVG LMTGDITINP DAGCLVMTTE 240
ILRSMLYRGS EVMREVAWVI FDEVHYMRDK ERGVVWEETI ILLPDKVRYV FLSATIPNAM 300
EFAEWICKIH SQPCHIVYTN FRPTPLQHYL FPAHGDGIYL VVDEKSTFRE ENFQKAMASI 360
SNQIGDDPNS TDSRGKKGQT YKGGSAKGDA KGDIYKIVKM IWKKKYNPVI VFSFSKRDCE 420
ELALKMSKLD FNSDDEKEAL TKIFNNAIAL LPETDRELPQ IKHILPLLRR GIGIHHSGLL 480
PILKEVIEIL FQEGFLKVLF ATETFSIGLN MPAKTVVFTS VRKWDGQQFR WVSGGEYIQM 540
SGRAGRRGLD DRGIVIMMID EKMEPQVAKG MVKGQADRLD SAFHLGYNMI LNLMRVEGIS 600
PEFMLEHSFF QFQNVISVPV MEKKLAELKK DFDGIEVEDE ENVKEYHEIE QAIKGYREDV 660
RQVVTHPANA LSFLQPGRLV EISVNGKDNY GWGAVVDFAK RINKRNPSAV YTDHESYIVN 720
VVVNTMYIDS PVNLLKPFNP TLPEGIRPAE EGEKSICAVI PITLDSIKSI GNLRLYMPKD 780
IRASGQKETV GKSLREVNRR FPDGIPVLDP VKNMKIEDED FLKLMKKIDV LNTKLSSNPL 840
TNSMRLEELY GKYSRKHDLH EDMKQLKRKI SESQAVIQLD DLRRRKRVLR RLGFCTPNDI 900
IELKGRVACE ISSGDELLLT ELIFNGNFNE LKPEQAAALL SCFAFQERCK EAPRLKPELA 960
EPLKAMREIA AKIAKIMKDS KIEVVEKDYV ESFRHELMEV VYEWCRGATF TQICKMTDVY 1020
EGSLIRMFKR LEELVKELVD VANTIGNSSL KEKMEAVLKL IHRDIVSAGS LYL 1073 
Gene Ontology
 GO:0005730; C:nucleolus; IDA:SGD.
 GO:0031499; C:TRAMP complex; IDA:SGD.
 GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
 GO:0034459; F:ATP-dependent 3'-5' RNA helicase activity; IDA:SGD.
 GO:0016491; F:oxidoreductase activity; IEA:InterPro.
 GO:0008143; F:poly(A) RNA binding; IDA:SGD.
 GO:0000467; P:exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA); IMP:SGD.
 GO:0043629; P:ncRNA polyadenylation; IDA:SGD.
 GO:0071042; P:nuclear polyadenylation-dependent mRNA catabolic process; IMP:SGD.
 GO:0071035; P:nuclear polyadenylation-dependent rRNA catabolic process; IMP:SGD.
 GO:0071038; P:nuclear polyadenylation-dependent tRNA catabolic process; IDA:SGD.
 GO:0071049; P:nuclear retention of pre-mRNA with aberrant 3'-ends at the site of transcription; IGI:SGD.
 GO:0071051; P:polyadenylation-dependent snoRNA 3'-end processing; IMP:SGD.
 GO:0034475; P:U4 snRNA 3'-end processing; IMP:SGD.
 GO:0034476; P:U5 snRNA 3'-end processing; IMP:SGD. 
Interpro
 IPR011545; DNA/RNA_helicase_DEAD/DEAH_N.
 IPR012961; DSH_C.
 IPR014001; Helicase_ATP-bd.
 IPR001650; Helicase_C.
 IPR027417; P-loop_NTPase.
 IPR011254; Prismane-like.
 IPR016438; RNA_helicase_ATP-dep_SK12/DOB1.
 IPR025696; rRNA_proc-arch_dom. 
Pfam
 PF00270; DEAD
 PF08148; DSHCT
 PF00271; Helicase_C
 PF13234; rRNA_proc-arch 
SMART
 SM00487; DEXDc
 SM00490; HELICc 
PROSITE
 PS51192; HELICASE_ATP_BIND_1
 PS51194; HELICASE_CTER 
PRINTS