2019-12-18RELPDBePDBePDBe2019-04-022019-04-172019-06-122019-12-18Swiss National Science FoundationCRSII3_160734/1SwitzerlandEuropean Commission667951European Union666068Japan Society for the Promotion of ScienceJP18H05534JapanEuropean Commission705354Japan Agency for Medical Research and Development (AMED)JP18am0101076JapanJapan Society for the Promotion of ScienceJP16H06307JapanCryo-EM structure of NCP-THF2(+1)-UV-DDB class BMatsumoto SCavadini SBunker RDThoma NHMatsumoto SCavadini SBunker RDGrand RSPotenza ARabl JYamamoto JSchenk ADSchubeler DIwai SSugasawa KKurumizaka HThoma NHDNA damage detection in nucleosomes involves DNA register shifting.NatureUK5717984201931142837doi:10.1038/s41586-019-1259-31476-46870006NATUASEMD-4766associated EM volumeCryo-EM structure of NCP-THF2(+1)-UV-DDB class B6r92FULLOVERLAPUV-DDB bound to a THF2 (+1) containing nucleosome class BUV-DDB bound to a THF2 (+1) containing nucleosome class B012345678DNA112Homo sapienssynthetic constructDNA damage-binding protein 1(2), DNA damage-binding protein 2138Homo sapiensTrichoplusia niHistone H3.1, Histone H2A, Histone H2B1467Homo sapiensEscherichia coli BL21(DE3)Histone H415Homo sapiensEscherichia coliHuman alpha-satellite DNA (145-MER)Homo sapiens0.0447566481(DA)(DT)(DC)(DA)(DA)(DT)(DA)(DT)(DC)(DC)(DA)(DC)(DC)(DT)(DG)(DC)(DA)(DG)(DA)(DT)
(DT)(DC)(DT)(DA)(DC)(DC)(DA)(DA)(DA)(DA)(DG)(DT)(DG)(DT)(DA)(DT)(DT)(DT)(DG)(DG)
(DA)(DA)(DA)(DC)(DT)(DG)(DC)(DT)(DC)(DC)(DA)(DT)(DC)(DA)(DA)(DA)(DA)(DG)(DG)(DC)
(DA)(DT)(DG)(DT)(DT)(DC)(DA)(DG)(DC)(DT)(DG)(DG)(DT)(DT)(DC)(DA)(DG)(DC)(DT)(DG)
(DA)(DA)(DC)(DA)(DT)(DG)(DC)(DC)(DT)(DT)(DT)(DT)(DG)(DA)(DT)(DG)(DG)(DA)(DG)(DC)
(DA)(DG)(DT)(DT)(DT)(DC)(DC)(DA)(DA)(DA)(DT)(DA)(DC)(DA)(DC)(DT)(DT)(DT)(DT)(DG)
(DG)(DT)(DA)(DG)(DA)(DA)(DT)(DC)(DT)(DG)(DC)(DA)(DG)(DG)(DT)(DG)(DG)(DA)(DT)(DA)
(DT)(DT)(DG)(DA)(DT)DNAHuman alpha-satellite DNA (145-MER) with abasic sites at positions 93-94Homo sapiens0.0444524341(DA)(DT)(DC)(DA)(DA)(DT)(DA)(DT)(DC)(DC)(DA)(DC)(DC)(DT)(DG)(DC)(DA)(DG)(DA)(DT)
(DT)(DC)(DT)(DA)(DC)(DC)(DA)(DA)(DA)(DA)(DG)(DT)(DG)(DT)(DA)(DT)(DT)(DT)(DG)(DG)
(DA)(DA)(DA)(DC)(DT)(DG)(DC)(DT)(DC)(DC)(DA)(DT)(DC)(DA)(DA)(DA)(DA)(DG)(DG)(DC)
(DA)(DT)(DG)(DT)(DT)(DC)(DA)(DG)(DC)(DT)(DG)(DA)(DA)(DC)(DC)(DA)(DG)(DC)(DT)(DG)
(DA)(DA)(DC)(DA)(DT)(DG)(DC)(DC)(DT)(DT)(DT)(DT)(3DR)(3DR)(DT)(DG)(DG)(DA)(DG)
(DC)(DA)(DG)(DT)(DT)(DT)(DC)(DC)(DA)(DA)(DA)(DT)(DA)(DC)(DA)(DC)(DT)(DT)(DT)(DT)
(DG)(DG)(DT)(DA)(DG)(DA)(DA)(DT)(DC)(DT)(DG)(DC)(DA)(DG)(DG)(DT)(DG)(DG)(DA)(DT)
(DA)(DT)(DT)(DG)(DA)(DT)DNADNA damage-binding protein 2Homo sapiens0.0506018441Trichoplusia niLEVOMASWSHPQFEKVDENLYFQGGGRMAPKKRPETQKTSEIVLRPRNKRSRSPLELEPEAKKLCAKGSGPSRRCDSDCLWVGL
AGPQILPPCRSIVRTLHQHKLGRASWPSVQQGLQQSFLHTLDSYRILQKAAPFDRRATSLAWHPTHPSTVAVGSKGGDIM
LWNFGIKDKPTFIKGIGAGGSITGLKFNPLNTNQFYASSMEGTTRLQDFKGNILRVFASSDTINIWFCSLDVSASSRMVV
TGDNVGNVILLNMDGKELWNLRMHKKKVTHVALNPCCDWFLATASVDQTVKIWDLRQVRGKASFLYSLPHRHPVNAACFS
PDGARLLTTDQKSEIRVYSASQWDCPLGLIPHPHRHFQHLTPIKAAWHPRYNLIVVGRYPDPNFKSCTPYELRTIDVFDG
NSGKMMCQLYDPESSGISSLNEFNPMGDTLASAMGYHILIWSQEEARTRKHistone H3.1Homo sapiens0.0157194452Escherichia coli BL21(DE3)LEVOGSHMARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQ
DFKTDLRFQSSAVMALQEACEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERAHistone H4Homo sapiens0.0116767032Escherichia coliLEVOGSHMSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHA
KRKTVTAMDVVYALKRQGRTLYGFGGHistone H2A type 1-B/EHomo sapiens0.0144478252Escherichia coli BL21(DE3)LEVOGSHMSGRGKQGGKARAKAKTRSSRAGLQFPVGRVHRLLRKGNYSERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKT
RIIPRHLQLAIRNDEELNKLLGRVTIAQGGVLPNIQAVLLPKKTESHHKAKGKHistone H2B type 1-JHomo sapiens0.0142175162Escherichia coli BL21(DE3)LEVOGSHMPEPAKSAPAPKKGSKKAVTKAQKKDGKKRKRSRKESYSIYVYKVLKQVHPDTGISSKAMGIMNSFVNDIFERIAGE
ASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSAKDNA damage-binding protein 1,DNA damage-binding protein 1Homo sapiens0.1297663051Trichoplusia niLEVOMASWSHPQFEKVDENLYFQGGGRMSYNYVVTAQKPTAVNGCVTGHFTSAEDLNLLIAKNTRLEIYVVTAEGLRPVKEVGM
YGKIAVMELFRPKGESKDLLFILTAKYNACILEYKQSGESIDIITRAHGNVQDRIGRPSETGIIGIIDPECRMIGLRLYD
GLFKVIPLDRDNKELKAFNIRLEELHVIDVKFLYGCQAPTICFVYQDPQGRHVKTYEVSLREKEFNKGPWKQENVEAEAS
MVIAVPEPFGGAIIIGQESITYHNGDKYLAIAPPIIKQSTIVCHNRVDPNGSRYLLGDMEGRLFMLLLEKEEQMDGTVTL
KDLRVELLGETSIAECLTYLDNGVVFVGSRLGDSQLVKLNVDSNEQGSYVVAMETFTNLGPIVDMCVVDLERQGQGQLVT
CSGAFKEGSLRIIRNGIGIHEHASIDLPGIKGLWPLRSDPNRETDDTLVLSFVGQTRVLMLNGEEVEETELMGFVDDQQT
FFCGNVAHQQLIQITSASVRLVSQEPKALVSEWKEPQAKNISVASCNSSQVVVAVGRALYYLQIHPQELRQISHTEMEHE
VACLDITPLGDSNGLSPLCAIGLWTDISARILKLPSFELLHKEMLGGEIIPRSILMTTFESSHYLLCALGDGALFYFGLN
IETGLLSDRKKVTLGTQPTVLRTFRSLSTTNVFACSDRPTVIYSSNHKLVFSNVNLKEVNYMCPLNSDGYPDSLALANNS
TLTIGTIDEIQKLHIRTVPLYESPRKICYQEVSQCFGVLSSRIEVQDTSGGTTALRPSASTQALSSSVSSSKLFSSSTAP
HETSFGEEVEVHNLLIIDQHTFEVLHAHQFLQNEYALSLVSCKLGKDPNTYFIVGTAMVYPEEAEPKQGRIVVFQYSDGK
LQTVAEKEVKGAVYSMVEFNGKLLASINSTVRLYEWTTEKELRTECNHYNNIMALYLKTKGDFILVGDLMRSVLLLAYKP
MEGNFEEIARDFNPNWMSAVEILDDDNFLGAENAFNLFVCQKDSAATTDEERQHLQEVGLFHLGEFVNVFCHGSLVMQNL
GETSTPTQGSVLFGTVNGMIGLVTSLSESWYNLLLDMQNRLNKVIKSVGKIEHSFWRSFHTERKTEPATGFIDGDLIESF
LDISRPKMQEVVANLQYDDGSGMKREATADDLIKVVEELTRIHsingleParticleparticle27.4ETHANE85277LEICA EM GPFEI TITAN KRIOSSPOT SCANBRIGHT FIELDFIELD EMISSION GUN300GATAN K2 SUMMIT (4k x 4k)COUNTING40.01Gctf4.8FSC 0.143 CUT-OFFRELION248925OTHEROTHER4ZUXI4ZUXJ5Y0CA5Y0CB5Y0CC5Y0CD5Y0CE5Y0CF5Y0CG5Y0CH4E54B3EI4AFLEXIBLE FITCross-correlation coefficientREAL