2024-03-27RELPDBjPDBjPDBj2019-07-202019-09-112019-09-112024-03-27National Science Foundation (China)ChinaCryo-EM structure of human MLL3-ubNCP complex (4.0 angstrom)Huang JXue Hhistone modification, nucleosome, MLL, TRANSCRIPTION, TRANSCRIPTION-DNA complexXue HYao TCao MZhu GLi YYuan GChen YLei MHuang JStructural basis of nucleosome recognition and modification by MLL methyltransferases.NatureUK573445449201931485071doi:10.1038/s41586-019-1528-11476-46870006NATUAS6kiwFULLOVERLAPHuman MLL3 complex associated with an H2B-monoubiquitinated nucleosome (4.0 angstrom)Human MLL3 complex associated with an H2B-monoubiquitinated nucleosome (4.0 angstrom)01234567891011Human MLL311234567891011Homo sapiensH2B-monoubiquitinated nucleosome11234567891011Xenopus laevisHistone H3Xenopus laevis0.015303932Escherichia coliLEVOARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKT
DLRFQSSAVMALQEASEAYLVALFEDTNLCAIHAKRVTIMPKDIQLARRIRGERAA0A310TTQ1Histone H4Xenopus laevis0.0112632309999999992Escherichia coliLEVOSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKT
VTAMDVVYALKRQGRTLYGFGGP62799Histone H2AXenopus laevis0.0139782409999999992Escherichia coliLEVOSGRGKQGGKTRAKAKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIP
RHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKKTESSKSAKSKQ6AZJ8Histone H2B 1.1Xenopus laevis0.0134987152Escherichia coliLEVOAKSAPAPKKGSKKAVTKTQKKDGKKRRKTRKESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHY
NKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTCYTSAKP02281DNA (144-MER)synthetic construct0.0442171721(DC)(DG)(DA)(DG)(DA)(DA)(DT)(DC)(DC)(DC)(DG)(DG)(DT)(DG)(DC)(DC)(DG)(DA)(DG)(DG)
(DC)(DC)(DG)(DC)(DT)(DC)(DA)(DA)(DT)(DT)(DG)(DG)(DT)(DC)(DG)(DT)(DA)(DG)(DA)(DC)
(DA)(DG)(DC)(DT)(DC)(DT)(DA)(DG)(DC)(DA)(DC)(DC)(DG)(DC)(DT)(DT)(DA)(DA)(DA)(DC)
(DG)(DC)(DA)(DC)(DG)(DT)(DA)(DC)(DG)(DC)(DG)(DC)(DT)(DG)(DT)(DC)(DC)(DC)(DC)(DC)
(DG)(DC)(DG)(DT)(DT)(DT)(DT)(DA)(DA)(DC)(DC)(DG)(DC)(DC)(DA)(DA)(DG)(DG)(DG)(DG)
(DA)(DT)(DT)(DA)(DC)(DT)(DC)(DC)(DC)(DT)(DA)(DG)(DT)(DC)(DT)(DC)(DC)(DA)(DG)(DG)
(DC)(DA)(DC)(DG)(DT)(DG)(DT)(DC)(DA)(DG)(DA)(DT)(DA)(DT)(DA)(DT)(DA)(DC)(DA)(DT)
(DC)(DC)(DG)(DA)DNADNA (145-MER)synthetic construct0.0449926479999999961(DT)(DC)(DG)(DG)(DA)(DT)(DG)(DT)(DA)(DT)(DA)(DT)(DA)(DT)(DC)(DT)(DG)(DA)(DC)(DA)
(DC)(DG)(DT)(DG)(DC)(DC)(DT)(DG)(DG)(DA)(DG)(DA)(DC)(DT)(DA)(DG)(DG)(DG)(DA)(DG)
(DT)(DA)(DA)(DT)(DC)(DC)(DC)(DC)(DT)(DT)(DG)(DG)(DC)(DG)(DG)(DT)(DT)(DA)(DA)(DA)
(DA)(DC)(DG)(DC)(DG)(DG)(DG)(DG)(DG)(DA)(DC)(DA)(DG)(DC)(DG)(DC)(DG)(DT)(DA)(DC)
(DG)(DT)(DG)(DC)(DG)(DT)(DT)(DT)(DA)(DA)(DG)(DC)(DG)(DG)(DT)(DG)(DC)(DT)(DA)(DG)
(DA)(DG)(DC)(DT)(DG)(DT)(DC)(DT)(DA)(DC)(DG)(DA)(DC)(DC)(DA)(DA)(DT)(DT)(DG)(DA)
(DG)(DC)(DG)(DG)(DC)(DC)(DT)(DC)(DG)(DG)(DC)(DA)(DC)(DC)(DG)(DG)(DG)(DA)(DT)(DT)
(DC)(DT)(DC)(DG)(DA)DNAHistone-lysine N-methyltransferase 2CHomo sapiens0.0236429409999999971Escherichia coliLEVOGSARSEPKMSAHVKRFVLRPHTLNSTSTSKSFQSTVTGELNAPYSKQFVHSKSSQYRKMKTEWKSNVYLARSRIQGLGLY
AARDIEKHTMVIEYIGTIIRNEVANRKEKLYESQNRGVYMFRMDNDHVIDATLTGGPARYINHSCAPNCVAEVVTFERGH
KIIISSSRRIQKGEELCYDYKFDFEDDQHKIPCHCGAVNCRKWMNQ8NEZ42.1.1.43Retinoblastoma-binding protein 5Homo sapiens0.0592234771Escherichia coliLEVOMNLELLESFGQNYPEEADGTLDCISMALTCTFNRWGTLLAVGCNDGRIVIWDFLTRGIAKIISAHIHPVCSLCWSRDGHK
LVSASTDNIVSQWDVLSGDCDQRFRFPSPILKVQYHPRDQNKVLVCPMKSAPVMLTLSDSKHVVLPVDDDSDLNVVASFD
RRGEYIYTGNAKGKILVLKTDSQDLVASFRVTTGTSNTTAIKSIEFARKGSCFLINTADRIIRVYDGREILTCGRDGEPE
PMQKLQDLVNRTPWKKCCFSGDGEYIVAGSARQHALYIWEKSIGNLVKILHGTRGELLLDVAWHPVRPIIASISSGVVSI
WAQNQVENWSAFAPDFKELDENVEYEERESEFDIEDEDKSEPEQTGADAAEDEEVDVTSVDPIAAFCSSDEELEDSKALL
YLPIAPEVEDPEENPYGPPPDAVQTSLMDEGASSEKKRQSSADGSQPPKKKPKTTNIELQGVPNDEVHPLLGVKGDGKSK
KKQAGRPKGSKGKEKDSPFKPKLYKGDRGLPLEGSAKGKVQAELSQPLTAGGAISELLQ15291UbiquitinHomo sapiens0.0086229221Escherichia coliLEVOMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGCP62979WD repeat-containing protein 5Homo sapiens0.0366354381Escherichia coliLEVOMATEEKKPETEAARAQPTPSSSATQSKPTPVKPNYALKFTLAGHTKAVSSVKFSPNGEWLASSSADKLIKIWGAYDGKFE
KTISGHKLGISDVAWSSDSNLLVSASDDKTLKIWDVSSGKCLKTLKGHSNYVFCCNFNPQSNLIVSGSFDESVRIWDVKT
GKCLKTLPAHSDPVSAVHFNRDGSLIVSSSYDGLCRIWDTASGQCLKTLIDDDNPPVSFVKFSPNGKYILAATLDNTLKL
WDYSKGKCLKTYTGHKNEKYCIFANFSVTGGKWIVSGSEDNLVYIWNLQTKEIVQKLQGHTDVVISTACHPTENIIASAA
LENDKTIKLWKSDCP61964Set1/Ash2 histone methyltransferase complex subunit ASH2Homo sapiens0.0602887581Escherichia coliLEVOMDTQAGSVDEENGRQLGEVELQCGICTKWFTADTFGIDTSSCLPFMTNYSFHCNVCHHSGNTYFLRKQANLKEMCLSALA
NLTWQSRTQDEHPKTMFSKDKDIIPFIDKYWECMTTRQRPGKMTWPNNIVKTMSKERDVFLVKEHPDPGSKDPEEDYPKF
GLLDQDLSNIGPAYDNQKQSSAVSTSGNLNGGIAAGSSGKGRGAKRKQQDGGTTGTTKKARSDPLFSAQRLPPHGYPLEH
PFNKDGYRYILAEPDPHAPDPEKLELDCWAGKPIPGDLYRACLYERVLLALHDRAPQLKISDDRLTVVGEKGYSMVRASH
GVRKGAWYFEITVDEMPPDTAARLGWSQPLGNLQAPLGYDKFSYSWRSKKGTKFHQSIGKHYSSGYGQGDVLGFYINLPE
DTETAKSLPDTYKDKALIKFKSYLYFEEKDFVDKAEKSLKQTPHSEIIFYKNGVNQGVAYKDIFEGVYFPAISLYKSCTV
SINFGPCFKYPPKDLTYRPMSDMGWGAVVEHTLADVLYHVETEVDGRRSPPWEPQ9UBL3ZINC ION6.5409e-051ZNsingleParticleparticle7.5ETHANEFEI TITAN KRIOSFLOOD BEAMBRIGHT FIELDFIELD EMISSION GUN300FEI FALCON III (4k x 4k)40.01C14.0FSC 0.143 CUT-OFF81945MAXIMUM LIKELIHOODMAXIMUM LIKELIHOODemd_0693_msk_1.mapemd_0693_additional_1.map.gz1IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
270
270270
0
00270270270294.30002294.30002294.3000290.090.090.0XYZ-0.228717790.33579835-0.00026593130.0121945721.091.091.09Additional EM map shows good density of WDR5.emd_0693_additional_2.map.gz1IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
270
270270
0
00270270270294.30002294.30002294.3000290.090.090.0XYZ-0.217834680.32355958-0.000208046840.0120241151.091.091.09Additional EM map shows the major binding mode of H2BK120ub1 to RBBP5.emd_0693_additional_3.map.gz1IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
270
270270
0
00270270270294.30002294.30002294.3000290.090.090.0XYZ-0.164602060.25274268-0.000216345260.0110688731.091.091.09Additional EM map shows the minor binding mode 1 of H2BK120ub1 to RBBP5.emd_0693_additional_4.map.gz1IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
270
270270
0
00270270270294.30002294.30002294.3000290.090.090.0XYZ-0.166277270.28339142-0.000207673760.0111031251.091.091.09Additional EM map shows the minor binding mode 2 of H2BK120ub1 to RBBP5.emd_0693_additional_5.map.gz1IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
270
270270
0
00270270270294.30002294.30002294.3000290.090.090.0XYZ-0.221839740.3371951-0.000279685540.0123996691.091.091.09Additional EM map shows the minor binding mode 3 of H2BK120ub1 to RBBP5.emd_0693_additional_6.map.gz1IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
270
270270
0
00270270270294.30002294.30002294.3000290.090.090.0XYZ-0.152961670.24333762-0.000317693720.0104370211.091.091.09Additional EM map shows good density of ASH2L.