2018-02-14 REL RCSB RCSB RCSB 2016-03-17 2016-06-01 2016-06-01 2018-02-14 BG505 SOSIP.664 HIV-1 Env trimer in complex with anti-HIV fusion peptide targeting N123-VRC34.01 Fab Ozorowski G Ward AB Kong R Xu K Zhou T Acharya P Lemmin T Liu K Ozorowski G Soto C Taft JD Bailer RT Cale EM Chen L Choi CW Chuang GY Doria-Rose NA Druz A Georgiev IS Gorman J Huang J Joyce MG Louder MK Ma X McKee K O'Dell S Pancera M Yang Y Blanchard SC Mothes W Burton DR Koff WC Connors M Ward AB Kwong PD Mascola JR Fusion peptide of HIV-1 as a site of vulnerability to neutralizing antibody. Science US 352 828 833 2016 27174988 doi:10.1126/science.aae0474 1095-9203 0038 SCIEAS EMD-8125 associated EM volume
Associated x-ray crystal structure
 Complex containing 3 copies of N123-VRC34.01 anti-HIV Fab bound to a trimer of HIV-1 Env B505 SOSIP.664 Complex containing 3 copies of N123-VRC34.01 anti-HIV Fab bound to a trimer of HIV-1 Env B505 SOSIP.664 0 0.57 HIV-1 Env BG505 SOSIP.664 1
Soluble and stabilized HIV-1 Env trimer from strain BG505. Engineered disulfide between A501C and T605C. I559P mutation to stabilize in pre-fusion state. Addition of N332 to restore glycosylation site for purification and antigenic properties. Truncation after D664 to increase solubility. Formed with three gp140 subunits.
Human immunodeficiency virus 1 BG505 Homo sapiens HEK293F pPPI4 Anti-HIV N123-VRC34.01 antibody fragment antigen binding 1 Homo sapiens Homo sapiens Expi 293 pcDNA3.1 0.05 singleParticle particle 0.03 7.4 50.0 Tris 150.0 NaCl Sodium chloride
Sterile filtered buffer
 NEGATIVE 2% w/v uranyl formate
Negatively stained EM samples were prepared on carbon-coated Cu400 grids by applying sample for 10 seconds, blotting, applying 2% w/v uranyl formate for 45 seconds, and blotting again.
 EMS COPPER CARBON PLASMA CLEANING
Trimers were incubated with a 6-molar excess of Fab overnight at room temperature.
 FEI TECNAI 20 FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 200 100.0 2.7 1.0 1.5 92000. SIDE ENTRY, EUCENTRIC
Collected a tilt series of -50, -40, -30, -20, -10, and 0 degrees.
FEI CETA (4k x 4k) 4096 4096 14.0 25.0 1
Dark and light camera corrections were performed prior to data acquisition.
EMAN2 e2initialmodel.py was used to generate an initial model from 2D class averages.
 C3 17.0 FSC 0.5 CUT-OFF SPARX sxali3d.py 9261 PROJECTION MATCHING EMAN2 e2initialmodel.py PROJECTION MATCHING SPARX sxali3d.py
Sparx sxali3d.py was used to refine particles against an initial model generated by EMAN2.
 emd_8125.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 160 160 160 0 0 0 160 160 160 251.20001 251.20001 251.20001 90.0 90.0 90.0 X Y Z -16.328806 39.342570000000002 0.44375223 3.9348037 1.57 1.57 1.57 5. AUTHOR None