REL PDBe PDBe PDBe 2013-07-25 2013-08-07 2013-10-09 2013-10-09 Negative stain Electron Microscopy of BG505 SOSIP.664 gp140 in complex with PGV04 Sanders RW Derking R Cupo A Julien JP Yasmeen A de Val N Kim HJ Blattner C Torrents A Korzun J Golabek M de los Reyes K Ketas TJ van Gils MJ King CR Wilson IA Ward AB Klasse PJ Moore JP HIV antibody Env trimer, Bg505 SOSIP.664, PGV04 Sanders RW Derking R Cupo A Julien JP Yasmeen A de Val N Kim HJ Blattner C Torrents A Korzun J Golabek M de los Reyes K Ketas TJ van Gils MJ King CR Wilson IA Ward AB Klasse PJ Moore JP A Next-Generation Cleaved, Soluble HIV-1 Env Trimer, BG505 SOSIP.664 gp140, Expresses Multiple Epitopes for Broadly Neutralizing but Not Non-Neutralizing Antibodies. PLOS PATHOG. 9 e1003618 e1003618 2013 24068931 doi:10.1371/journal.ppat.1003618 HIV spike protein 664G construct in complex with Fab fragment of PGV04 monoclonal antibody HIV spike protein 664G construct in complex with Fab fragment of PGV04 monoclonal antibody
The PGV04 Fab was incubated for 40 minutes at 4C with BG505 SOSIP.664. This complex was purified using a size exclusion chromatography and concentrated.
One trimer binds to three Fabs 2 0.51 0.51 Size exclusion Chromatography HIV spike protein BG505 SOSIP.664 Human immunodeficiency virus 0.36 0.36
BG505 SOSIP.664 was complexed with PGV04
1 Trimer true Homo sapiens HEK293T pPPI4 Q2N0S6 PGV04 FAB Homo sapiens
produced as an IgG in mammalian cells and digested with papain into Fab
1 true Homo sapiens HEK293T singleParticle particle 0.03 7.4
50mM TRIS-HCl 150mM NaCl
 NEGATIVE
2% w/v Uranyl Formate for 25 seconds
400 mesh copper grid
 NONE OTHER FEI TECNAI F20 FLOOD BEAM BRIGHT FIELD LAB6 120 2 0.9 1.3 52000.0 52050.0 SIDE ENTRY, EUCENTRIC 292 294 293 Objective lens astigmatism was corrected at 100,000 times magnification -2 2013-04-16 TVIPS TEMCAM-F416 (4k x 4k) 834 55 1.4 0 50
Particles were picked automatically using DoG Picker and put into a particle stack using the Appion software package Initial, reference-free, two-dimensional (2D) class averages were calculated using particles binned by five via the Xmipp Clustering 2D Alignment and sorted into classes. EMAN was used for the 3D reconstruction.
C3 OTHER 23.0 FSC 0.5 CUT-OFF EMAN2, EMAN1
The particles were selected using a DoG Picker, and cleaned using reference free class averaging. The final map was calculated from a single dataset
32867 256 emd_2427.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 96 96 96 -12 -12 -12 96 96 96 393.59998 393.59998 393.59998 90.0 90.0 90.0 X Y Z -6.3263607 14.41932201 0.0 0.86508 4.1 4.1 4.1 3.5 AUTHOR Bg505 SOSIP.664 with PGV04
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 3SE9 RIGID BODY FIT Chimera Correlation, Fit in Map, Chimera REAL