8F92

HIV Env BG505_MD39_B11 SOSIP boosting trimer in complex with B11_d77.7 mouse Fab and RM20A3 Fab


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.14 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history



Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
BG505_MD39_B11 gp120A,
G [auth E],
M [auth F]
481Human immunodeficiency virusMutation(s): 0 
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
RM20A3 Fab heavy chainB [auth C],
H [auth J],
N [auth K]
125Macaca mulattaMutation(s): 0 
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
RM20A3 Fab light chainC [auth D],
I [auth M],
O [auth N]
128Macaca mulattaMutation(s): 0 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
BG505_MD39_B11 gp41D [auth B],
J [auth G],
P [auth I]
162Human immunodeficiency virusMutation(s): 0 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
B11_d77.7 Fab heavy chainE [auth H],
K [auth O],
Q [auth P]
130Mus musculusMutation(s): 0 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
B11_d77.7 Fab kappa light chainF [auth L],
L [auth Q],
R
107Mus musculusMutation(s): 0 
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Oligosaccharides

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Entity ID: 7
MoleculeChains Length2D Diagram Glycosylation3D Interactions
alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
S, V, Y
6N-Glycosylation
Entity ID: 8
MoleculeChains Length2D Diagram Glycosylation3D Interactions
alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
T, W, Z
4N-Glycosylation
Entity ID: 9
MoleculeChains Length2D Diagram Glycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranoseAA [auth a],
U,
X
2N-Glycosylation
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG

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AB [auth E]
BA [auth A]
BB [auth E]
CA [auth A]
CB [auth G]
AB [auth E],
BA [auth A],
BB [auth E],
CA [auth A],
CB [auth G],
DA [auth A],
DB [auth G],
EA [auth A],
EB [auth G],
FA [auth A],
FB [auth F],
GA [auth A],
GB [auth F],
HA [auth A],
HB [auth F],
IA [auth A],
IB [auth F],
JA [auth A],
JB [auth F],
KA [auth A],
KB [auth F],
LA [auth A],
LB [auth F],
MA [auth A],
MB [auth F],
NA [auth B],
NB [auth F],
OA [auth B],
OB [auth F],
PA [auth B],
PB [auth F],
QA [auth E],
QB [auth F],
RA [auth E],
RB [auth I],
SA [auth E],
SB [auth I],
TA [auth E],
TB [auth I],
UA [auth E],
VA [auth E],
WA [auth E],
XA [auth E],
YA [auth E],
ZA [auth E]
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.14 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC3.2
MODEL REFINEMENTRosetta
MODEL REFINEMENTPHENIX

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Bill & Melinda Gates FoundationUnited StatesOPP1115782/INV-002916
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesUMI A1144462

Revision History  (Full details and data files)

  • Version 1.0: 2024-05-15
    Type: Initial release