2021-11-10RELRCSBRCSBRCSB2020-09-292021-09-292021-09-292021-11-10National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)HHSN272201700060CUnited StatesNational Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)75N93019C00062United StatesSARS-CoV-2 Spike RBD in complex with neutralizing Fab 2H04 (local refinement)Errico JMFremont DHCenter for Structural Genomics of Infectious Diseases (CSGID)Errico JMZhao HChen RELiu ZCase JBMa MSchmitz AJRau MJFitzpatrick JAJShi PYDiamond MSWhelan SPJEllebedy AHFremont DHStructural mechanism of SARS-CoV-2 neutralization by two murine antibodies targeting the RBD.Cell RepUS37109881109881202134655519doi:10.1016/j.celrep.2021.1098812211-1247EMD-22751associated EM volumeEMD-22748other EM volumeEMD-22749other EM volumeEMD-22750other EM volumeEMD-22752other EM volumeEMD-22753other EM volume7k9kFULLOVERLAPComplex of SARS-CoV-2 Spike RBD with Fab fragment of monoclonal antibody 2H04Complex of SARS-CoV-2 Spike RBD with Fab fragment of monoclonal antibody 2H040123Fab fragments generated by proteolytic cleavage of recombinantly expressed IgGSARS-CoV-2 Spike RBD11Severe acute respiratory syndrome coronavirus 2Homo sapiensHEK293Fab fragment of monoclonal antibody 2H04123Mus musculusHomo sapiensHEK293Spike protein S1Severe acute respiratory syndrome coronavirus 20.0218734961Homo sapiensLEVOTNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAP
GQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPL
QSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGP2H04 heavy chainMus musculus0.0134487839999999981Homo sapiensLEVOEVQLQQSGAELVKPGASVKMSCKASGYTFTSYWITWVKQRPGQGLEWIGDIYPGSGSTKYNEKFRSEATLTVDTSSTTAY
MQLSSLTSEDSAVYYCARWDFYGSRTFDYWGQGTTLTVSSA2H04 light chainMus musculus0.0114606331Homo sapiensLEVODIVLTQSPAILSVSPGERVSFSCRASQNIGTIIHWYQQRTNGSPRLLIKYASESVSGIPSRFSGSGSGTDFTLSINSVES
EDIADYYCQQSSSWPLTFGAGTKLELsingleParticleparticle1.07.520.0C8H18N2O4SHEPES150.0NaClsodium chloride0.01NaN3Sodium AzideETHANE100298FEI VITROBOT MARK IV20s wait time
2s blot time. 0.27.520.0C8H18N2O4SHEPES150.0NaClsodium chloride0.01NaN3Sodium AzideETHANE100298FEI VITROBOT MARK IV20s wait time
2s blot time. FEI TITAN KRIOSFLOOD BEAMBRIGHT FIELDFIELD EMISSION GUN3000.011.02.5105000.0FEI TITAN KRIOS AUTOGRID HOLDERNITROGEN80.080.0Microscope was modified with a Cs corrector.GIF Bioquantum20GATAN K2 SUMMIT (4k x 4k)COUNTING383837101-459.067.01877481Gctf1.066VXXC13.14FSC 0.143 CUT-OFFcryoSPARC2.15C3 expanded particles304667MAXIMUM LIKELIHOODRELION3.1MAXIMUM LIKELIHOODRELION3.1RELION3.1emd_22751_msk_1.mapemd_22751_additional_1.map.gz1IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
300
300300
0
00300300300330.0330.0330.090.090.090.0XYZ-0.991008462.24816160.00052863620.0204264541.11.11.1Truncated map used for model building and refinementemd_22751_half_map_1.map.gz1IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
300
300300
0
00300300300330.0330.0330.090.090.090.0XYZ-1.468374.24091050.00304998670.13253781.11.11.1Half map Aemd_22751_half_map_2.map.gz1IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
300
300300
0
00300300300330.0330.0330.090.090.090.0XYZ-1.148123.1939660.00304194910.13268311.11.11.1Half map B