2026-09-30 REL PDBe INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY PDBe PDBe 2026-01-26 2026-09-30 2026-09-30 2026-09-30 Bill & Melinda Gates Foundation RG.IMCB.I8-TSA-083 United States 6B5 (Fab) - Polio 3 (VLP) complex Bahar MW Fry EE Stuart DI Capsid protein, virus-like particle, complex, vaccine, monoclonal antibody, Fab, VIRUS LIKE PARTICLE Bahar MW Stonehouse NJ Rowlands DJ Fry EE Stuart DI 6B5 (Fab) - Polio 3 (VLP) complex To Be Published 0353 9u06 FULLOVERLAP EMDB EMD-56483 associated EM volume
6B5 (Fab) - Polio 3 (VLP) complex
 Poliovirus 3 Poliovirus 3 0 1 2 3 4 5
Recombinantly expressed virus-like particle of poliovirus type 3 Saukett strain.
Poliovirus 3 Saukett Homo sapiens 5.85 Virus shell 1 310.0 1 VIRUS-LIKE PARTICLE SEROTYPE false true Capsid proteins, VP1 Poliovirus 3 Saukett 0.033562785000000005 1 Komagataella pastoris LEVO GIEDLITEVAQGALTLSLPKQQDSLPDTKASGPAHSKEVPALTAVETGATNPLVPSDTVQTRHVIQRRSRSESTIESFFA RGACVAIIEVDNEEPTTRAQKLFAMWRITYKDTVQLRRKLEFFTYSRFDMELTFVVTANFTNTNNGHALNQVYQIMYIPP GAPTPKSWDDYTWQTSSNPSIFYTYGAAPARISVPYVGLANAYSHFYDGFAKVPLKTDANDQIGDSLYSAMTVDDFGVLA IRVVNDHNPTKVTSKVRIYMKPKHVRVWCPRPPRAVPYYGPGVDYKDNLNPLSEKGLTTY Q84895 Capsid proteins, VP0 Poliovirus 3 Saukett 0.037623023 1 Komagataella pastoris LEVO MGAQVSSQKVGAHENSNRAYGGSTINYTTINYYKDSASNAASKQDYSQDPSKFTEPLKDVLIKTAPALNSPNVEACGYSD RVLQLTIGNSTITTQEAANSVVAYGRWPEFIRDDEANPVDQPTEPDVATCRFYTLDTVMWGKESKGWWWKLPDALRDMGL FGQNMYYHYLGRSGYTVHVQCNASKFHQGALGVFAIPEYCLAGDSDKQRYTSYANANPGEKGGKFYSQFNRDTAVTSPKR EFCPVDYLLGCGVLLGNAFVYPHQIINLRTNNSATIVLPYVNAMAIDSMVKHNNWGIAILPLSPLDFAQESSVEIPITVT IAPMCSEFNGLRNVTAPKFQ Q84895 Capsid proteins, VP3 Poliovirus 3 Saukett 0.026315099999999998 1 Komagataella pastoris LEVO GLPVLNTPGSNQYLTSDNYQSPCAIPEFDVTPPIDIPGEVKNMMELAEIDTMIPLNLENTKRNTMDMYRVTLSDSADLSQ PILCFSLSPASDPRLSHTMLGEVLNYYTHWAGSLKFTFLFCGSMMATGKILVAYAPPGAQPPTSRKEAMLGTHVIWDLGL QSSCTMVVPWISNVTYRQTTQDSFTEGGYISMFYQTRIVVPLSTPKSMSMLGFVSACNDFSVRLLRDTTHISQSALPQ Q84895 6B5 Fab Heavy chain Homo sapiens 0.05275234399999999
Full sequence for the heavy chain of monoclonal antibody 6B5
1 Homo sapiens LEVO MELGLSWIFLLAILKGFQCEVQLVESGGGLVQPGRSLRLSCEASGFNFDDYAMHWVRQAPGKGLEWVSGISWSSSSRDYA DSVKGRFTISRDNAKNSLYLHMNSLREEDTALYYCAKDMSYYGSGGVLHYYYYGMDVWGQGTTVTVSSASTKGPSVFPLA PSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNT KVDKRVEPKSCDKTHTCPPCPAPELLGGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEVKFNWYVDGVEVHNAKT KPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAPIEKTISKAKGQPREPQVYTLPPSREEMTKNQVSLTCLV KGFYPSDIAVEWESNGQPENNYKTTPPVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSLSPGK 6B5 Fab Light chain Homo sapiens 0.024929635
Full sequence for the light chain of monoclonal antibody 6B5
1 Homo sapiens LEVO MAWALLFLTLLTQGTGSWAQSALTQPASVSGSPGQSITISCTGTSSDVGGYDYVSWYQQHPGKAPKVMIYDVSNRPSGVS NRFSGSKSGNTASLTISGLQAEDEAEYYCTSYTRSSTLVFGTGTKVTVLGQPKANPTVTLFPPSSEELQANKATLVCLIS DFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTECS SPHINGOSINE 0.000299492 1 SPH water 1.8015e-05 434 HOH singleParticle particle 0.8 7.0 1.0 DPBS 20.0 EDTA
1 x DPBS, 20 mM EDTA, pH 7.0
 Quantifoil R2/1 COPPER 200 CARBON CONTINUOUS 2.0 GLOW DISCHARGE AIR
Exact grid type was Quantifoil R2/1 Cu grids with 2 nm continous carbon layer. Product no. AGS174-1-2CL, Agar Scientific.
 ETHANE-PROPANE 100 278.15 FEI VITROBOT MARK IV
3 ul of sample blotted for 3.5 seconds with -10 blot force on FEI Vitrobot mark IV..
Sample purified by sucrose density gradient ultracentrifugation. Concentrated sample mixed with Fab to form complex.
 TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 100.0 2.7 0.8 2.6 165000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN
Calibrated pixel size was 0.7303 A/pix.
FEI FALCON IV (4k x 4k) 4096 4096 1 12000 1.79 30.0 1 164829 cryoSPARC 4.3.1 Patch CTF PHASE FLIPPING AND AMPLITUDE CORRECTION Five independent 3D models. Generated in CryoSPARC using ab-initio reconstruction with icosahedral symmetry applied. 1 I BACK PROJECTION 1.8 FSC 0.143 CUT-OFF cryoSPARC 4.3.1 56545 MAXIMUM LIKELIHOOD cryoSPARC 4.3.1 Ab-initio reconstruction MAXIMUM LIKELIHOOD cryoSPARC 4.3.1 Homogeneous refinement cryoSPARC 4.3.1 Heterogeneous refinement emd_56483.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 896 896 896 0 0 0 896 896 896 654.3488 654.3488 654.3488 90.0 90.0 90.0 X Y Z -0.20747082 0.7433064 0.0015316827 0.031304255 0.7303 0.7303 0.7303 0.25 AUTHOR Unsharpened map. 1PVC PDB experimental model AlphaFold in silico model
AlphaFold model for Fab
 RIGID BODY FIT
Initial model was rigid body fitted using UCSF chimera and Coot. Global minimization and B-factor refinement was performed in real space using phenix_real.space.refine.
Cross-correlation coefficient REAL emd_56483_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 896 896 896 0 0 0 896 896 896 654.3488 654.3488 654.3488 90.0 90.0 90.0 X Y Z -1.098513 2.6656232 0.0015316829 0.08128679 0.7303 0.7303 0.7303 AUTHOR Sharpened map. emd_56483_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 896 896 896 0 0 0 896 896 896 654.3488 654.3488 654.3488 90.0 90.0 90.0 X Y Z -0.29058287 0.8378211 0.0015014978 0.044821084 0.7303 0.7303 0.7303 AUTHOR Half map. emd_56483_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 896 896 896 0 0 0 896 896 896 654.3488 654.3488 654.3488 90.0 90.0 90.0 X Y Z -0.2779408 0.8348564 0.0014958506 0.04480515 0.7303 0.7303 0.7303 AUTHOR Half map.