CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-015919
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 C-myc promoter-binding protein 
Protein Synonyms/Alias
 DENN domain-containing protein 4A 
Gene Name
 DENND4A 
Gene Synonyms/Alias
 IRLB; MYCPBP 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
287SEENLTEKQRLLLGLubiquitination[1]
1328NSMFTAGKGVAEKASubiquitination[1, 2]
Reference
 [1] 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]
 [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] 
Functional Description
 Probable guanine nucleotide exchange factor (GEF) which may activate RAB10. Promotes the exchange of GDP to GTP, converting inactive GDP-bound Rab proteins into their active GTP- bound form. According to PubMed:8056341, it may bind to ISRE-like element (interferon-stimulated response element) of MYC P2 promoter. 
Sequence Annotation
 DOMAIN 42 200 MABP.
 DOMAIN 203 276 UDENN.
 DOMAIN 308 492 DENN.
 DOMAIN 558 632 dDENN.
 REPEAT 772 808 PPR 1.
 REPEAT 809 843 PPR 2.
 MOTIF 917 933 Bipartite nuclear localization signal
 MOD_RES 731 731 Phosphoserine.
 MOD_RES 1035 1035 Phosphoserine.
 MOD_RES 1587 1587 Phosphoserine.  
Keyword
 Alternative splicing; Complete proteome; DNA-binding; Guanine-nucleotide releasing factor; Nucleus; Phosphoprotein; Polymorphism; Reference proteome; Repeat; Transcription; Transcription regulation. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 1863 AA 
Protein Sequence
MIEDKGPRVA DYFVVAGLTD VSKPLEEEIH FNDACHKVAK PKEPITDVSV IIKSLGEEVP 60
QDYICIDVTP TGLSADLNNG SLVGPQIYLC YRRGRDKPPL TDLGVLYDWK ERLKQGCEII 120
QSTPYGRPAN ISGSTSSQRI YITYRRASEN MTQNTLAVTD ICIIIPSKGE SPPHTFCKVD 180
KNLNNSMWGS AVYLCYKKSV AKTNTVSYKA GLICRYPQED YESFSLPESV PLFCLPMGAT 240
IECWPSNSKY PLPVFSTFVL TGASAEKVYG AAIQFYEPYS EENLTEKQRL LLGLTSADGK 300
SDSSKTIHTN KCICLLSHWP FFDAFRKFLT FLYRYSISGP HVLPIEKHIS HFMHKVPFPS 360
PQRPRILVQL SPHDNLILSQ PVSSPLPLSG GKFSTLLQNL GPENAVTLLV FAVTEHKILI 420
HSLRPSVLTS VTEALVSMIF PFHWPCPYVP LCPLALADVL SAPCPFIVGI DSRYFDLYDP 480
PPDVSCVDVD TNTISQIGDK KNVAWKILPK KPCKNLMNTL NNLHQQLAKL QQRPRDDGLM 540
DLAINDYDFN SGKRLHMIDL EIQEAFLFFM ASILKGYRSY LRPITQAPSE TATDAASLFA 600
LQAFLRSRDR SHQKFYNMMT KTQMFIRFIE ECSFVSDKDA SLAFFDDCVD KVDMDKSGEV 660
RLIELDESFK SEHTVFVTPP EIPHLPNGEE PPLQYSYNGF PVLRNNLFER PEGFLQAKKN 720
KLPSKSSSPN SPLPMFRRTK QEIKSAHKIA KRYSSIPQMW SRCLLRHCYG LWFICLPAYV 780
KVCHSKVRAL KTAYDVLKKM QSKKMDPPDE VCYRILMQLC GQYDQPVLAV RVLFEMQKAG 840
IDPNAITYGY YNKAVLESTW PSRSRSGYFL WTKVRNVVLG VTQFKRALKK HAHLSQTTLS 900
GGQSDLGYNS LSKDEVRRGD TSTEDIQEEK DKKGSDCSSL SESESTKGSA DCLPKLSYQN 960
SSSIVRLTGT SNNSAGKISG ESMESTPELL LISSLEDTNE TRNIQSRCFR KRHKSDNETN 1020
LQQQVVWGNR NRNLSGGVLM GFMLNRINQE ATPGDIVEKL GADAKILSNV ISKSTRPNTL 1080
DIGKPPLRSK RDSLEKESSD DDTPFDGSNY LADKVDSPVI FDLEDLDSET DVSKAGCVAT 1140
QNPKRIQRMN SSFSVKPFEK TDVATGFDPL SLLVAETEQQ QKEEEEEDED DSKSISTPSA 1200
RRDLAEEIVM YMNNMSSPLT SRTPSIDLQR ACDDKLNKKS PPLVKACRRS SLPPNSPKPV 1260
RLTKSKSYTK SEEKPRDRLW SSPAFSPTCP FREESQDTLT HSSPSFNLDT LLVPKLDVLR 1320
NSMFTAGKGV AEKASKWYSR FTMYTTSSKD QSSDRTSLSS VGAQDSESTS LTDEDVCHEL 1380
EGPISSQETS ATSGTKRIDL SRISLESSAS LEGSLSKFAL PGKSEVTSSF NASNTNIFQN 1440
YAMEVLISSC SRCRTCDCLV HDEEIMAGWT ADDSNLNTTC PFCGNIFLPF LNIEIRDLRR 1500
PGRYFLKSSP STENMHFPSS ISSQTRQSCI STSASGLDTS ALSVQGNFDL NSKSKLQENF 1560
CTRSIQIPAN RSKTAMSKCP IFPMARSIST SGPLDKEDTG RQKLISTGSL PATLQGATDS 1620
LGLEWHLPSP DPVTVPYLSP LVVWKELESL LENEGDHAIT VADFVDHHPI VFWNLVWYFR 1680
RLDLPSNLPG LILSSEHCNK YSKIPRHCMS EDSKYVLIQM LWDNMKLHQD PGQPLYILWN 1740
AHTQKYPMVH LLQKSDNSFN QELLKSMVKS IKMNDVYGPM SQILETLNKC PHFKRQRSLY 1800
REILFLSLVA LGRENIDIDA FDKEYKMAYD RLTPSQVKST HNCDRPPSTG VMECRKTFGE 1860
PYL 1863 
Gene Ontology
 GO:0005634; C:nucleus; NAS:UniProtKB.
 GO:0003677; F:DNA binding; NAS:UniProtKB.
 GO:0017112; F:Rab guanyl-nucleotide exchange factor activity; IDA:UniProtKB.
 GO:0006355; P:regulation of transcription, DNA-dependent; NAS:UniProtKB.
 GO:0006351; P:transcription, DNA-dependent; IEA:UniProtKB-KW. 
Interpro
 IPR005112; dDENN_dom.
 IPR001194; DENN_dom.
 IPR023341; MABP.
 IPR002885; Pentatricopeptide_repeat.
 IPR005113; uDENN_dom. 
Pfam
 PF03455; dDENN
 PF02141; DENN
 PF03456; uDENN 
SMART
 SM00801; dDENN
 SM00799; DENN
 SM00800; uDENN 
PROSITE
 PS50947; DDENN
 PS50211; DENN
 PS51498; MABP
 PS51375; PPR
 PS50946; UDENN 
PRINTS