CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-001696
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 DNA topoisomerase 3-beta-1 
Protein Synonyms/Alias
 DNA topoisomerase III beta-1 
Gene Name
 TOP3B 
Gene Synonyms/Alias
 TOP3B1 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
19SLAQSIAKILSRGSLubiquitination[1, 2]
100NPKLNMVKFLQVEGRubiquitination[1, 2, 3]
198AFTRFQTKYFQGKYGubiquitination[3]
281LNMTKLEKEAQVEATubiquitination[3, 4]
351YPENFDLKGSLRQQAubiquitination[4]
853NPRRPKDKMSALAAYubiquitination[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]
 [4] 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] 
Functional Description
 Releases the supercoiling and torsional tension of DNA introduced during the DNA replication and transcription by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand than undergoes passage around the unbroken strand thus removing DNA supercoils. Finally, in the religation step, the DNA 3'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone (By similarity). Possesses negatively supercoiled DNA relaxing activity. 
Sequence Annotation
 DOMAIN 3 153 Toprim.
 ACT_SITE 336 336 O-(5'-phospho-DNA)-tyrosine intermediate  
Keyword
 Alternative splicing; ATP-binding; Complete proteome; DNA-binding; Isomerase; Nucleotide-binding; Polymorphism; Reference proteome; Topoisomerase. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 862 AA 
Protein Sequence
MKTVLMVAEK PSLAQSIAKI LSRGSLSSHK GLNGACSVHE YTGTFAGQPV RFKMTSVCGH 60
VMTLDFLGKY NKWDKVDPAE LFSQAPTEKK EANPKLNMVK FLQVEGRGCD YIVLWLDCDK 120
EGENICFEVL DAVLPVMNKA HGGEKTVFRA RFSSITDTDI CNAMACLGEP DHNEALSVDA 180
RQELDLRIGC AFTRFQTKYF QGKYGDLDSS LISFGPCQTP TLGFCVERHD KIQSFKPETY 240
WVLQAKVNTD KDRSLLLDWD RVRVFDREIA QMFLNMTKLE KEAQVEATSR KEKAKQRPLA 300
LNTVEMLRVA SSSLGMGPQH AMQTAERLYT QGYISYPRTE TTHYPENFDL KGSLRQQANH 360
PYWADTVKRL LAEGINRPRK GHDAGDHPPI TPMKSATEAE LGGDAWRLYE YITRHFIATV 420
SHDCKYLQST ISFRIGPELF TCSGKTVLSP GFTEVMPWQS VPLEESLPTC QRGDAFPVGE 480
VKMLEKQTNP PDYLTEAELI TLMEKHGIGT DASIPVHINN ICQRNYVTVE SGRRLKPTNL 540
GIVLVHGYYK IDAELVLPTI RSAVEKQLNL IAQGKADYRQ VLGHTLDVFK RKFHYFVDSI 600
AGMDELMEVS FSPLAATGKP LSRCGKCHRF MKYIQAKPSR LHCSHCDETY TLPQNGTIKL 660
YKELRCPLDD FELVLWSSGS RGKSYPLCPY CYNHPPFRDM KKGMGCNECT HPSCQHSLSM 720
LGIGQCVECE SGVLVLDPTS GPKWKVACNK CNVVAHCFEN AHRVRVSADT CSVCEAALLD 780
VDFNKAKSPL PGDETQHMGC VFCDPVFQEL VELKHAASCH PMHRGGPGRR QGRGRGRARR 840
PPGKPNPRRP KDKMSALAAY FV 862 
Gene Ontology
 GO:0000793; C:condensed chromosome; IEA:Compara.
 GO:0005634; C:nucleus; TAS:ProtInc.
 GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
 GO:0003916; F:DNA topoisomerase activity; TAS:ProtInc.
 GO:0003917; F:DNA topoisomerase type I activity; IEA:EC.
 GO:0007059; P:chromosome segregation; IEA:Compara.
 GO:0006265; P:DNA topological change; IEA:InterPro. 
Interpro
 IPR000380; Topo_IA.
 IPR003601; Topo_IA_2.
 IPR023406; Topo_IA_AS.
 IPR013497; Topo_IA_cen.
 IPR013824; Topo_IA_cen_sub1.
 IPR013825; Topo_IA_cen_sub2.
 IPR023405; Topo_IA_core_domain.
 IPR003602; Topo_IA_DNA-bd.
 IPR006171; Toprim_domain. 
Pfam
 PF01131; Topoisom_bac
 PF01751; Toprim 
SMART
 SM00437; TOP1Ac
 SM00436; TOP1Bc
 SM00493; TOPRIM 
PROSITE
 PS00396; TOPOISOMERASE_I_PROK
 PS50880; TOPRIM 
PRINTS
 PR00417; PRTPISMRASEI.