5A8H
cryo-ET subtomogram averaging of BG505 SOSIP.664 in complex with sCD4, 17b, and 8ANC195
- PDB DOI: https://doi.org/10.2210/pdb5A8H/pdb
- EM Map EMD-3096: EMDB EMDataResource
- Classification: VIRAL PROTEIN/IMMUNE SYSTEM
- Organism(s): Human immunodeficiency virus 1, Homo sapiens
- Expression System: Homo sapiens
- Mutation(s): No 
- Deposited: 2015-07-15 Released: 2015-08-05 
Experimental Data Snapshot
- Method: ELECTRON MICROSCOPY
- Resolution: 23.0 Å
- Aggregation State: PARTICLE 
- Reconstruction Method: TOMOGRAPHY 
wwPDB Validation   3D Report Full Report
This is version 1.3 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
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Molecule | Chains | Sequence Length | Organism | Details | Image |
HIV-1 GP120 | 313 | Human immunodeficiency virus 1 | Mutation(s): 0  | ||
UniProt | |||||
Find proteins for P35961 (Human immunodeficiency virus type 1 group M subtype B (isolate YU-2)) Explore P35961  Go to UniProtKB:  P35961 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P35961 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
T-CELL SURFACE GLYCOPROTEIN CD4 | 185 | Homo sapiens | Mutation(s): 0  | ||
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P01730 (Homo sapiens) Explore P01730  Go to UniProtKB:  P01730 | |||||
PHAROS:  P01730 GTEx:  ENSG00000010610  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P01730 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 3 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
FAB OF BROADLY NEUTRALIZING ANTIBODY 17B | 214 | Homo sapiens | Mutation(s): 0  | ||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 4 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
FAB OF BROADLY NEUTRALIZING ANTIBODY 17B | 229 | Homo sapiens | Mutation(s): 0  | ||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 5 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
FAB OF BROADLY NEUTRALIZING ANTIBODY 8ANC195 VARIANT G52K5 | 215 | Homo sapiens | Mutation(s): 0  | ||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
|
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 6 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
FAB OF BROADLY NEUTRALIZING ANTIBODY 8ANC195 VARIANT G52K5 | 244 | Homo sapiens | Mutation(s): 0  | ||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
Ligands 1 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
NAG Query on NAG | AA [auth A] AB [auth M] BA [auth A] BB [auth M] CA [auth A] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N |
Experimental Data & Validation
Experimental Data
- Method: ELECTRON MICROSCOPY
- Resolution: 23.0 Å
- Aggregation State: PARTICLE 
- Reconstruction Method: TOMOGRAPHY 
Task | Software Package | Version |
---|---|---|
RECONSTRUCTION | EMAN | 2 |
RECONSTRUCTION | IMOD | |
RECONSTRUCTION | PEET |
Entry History 
Deposition Data
- Released Date: 2015-08-05  Deposition Author(s): Scharf, L., Wang, H., Gao, H., Chen, S., McDowall, A., Bjorkman, P.
Revision History (Full details and data files)
- Version 1.0: 2015-08-05
Type: Initial release - Version 1.1: 2017-02-15
Changes: Database references - Version 1.2: 2017-08-30
Changes: Data collection - Version 1.3: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Data collection, Derived calculations, Structure summary