4YK4
Human antibody 641 I-9 in complex with influenza hemagglutinin H1 Solomon Islands/03/2006
- PDB DOI: https://doi.org/10.2210/pdb4YK4/pdb
- Classification: Viral protein/Immune system
- Organism(s): Homo sapiens, Influenza A virus (A/Solomon Islands/3/2006(H1N1))
- Expression System: Mammalia, unidentified baculovirus
- Mutation(s): No
- Deposited: 2015-03-03 Released: 2015-05-27
- Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.80 Å
- R-Value Free: 0.260
- R-Value Work: 0.220
- R-Value Observed: 0.222
This is version 1.5 of the entry. See complete history.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| 641 I-9 VLCL antibody | A [auth Y], D [auth B] | 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: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| 641 I-9 VHCH antibody | B [auth Z], E [auth C] | 236 | 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: 3 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Hemagglutinin | C [auth E], F [auth A] | 230 | Influenza A virus (A/Solomon Islands/3/2006(H1N1)) | Mutation(s): 0 Gene Names: HA |  |
UniProt | |||||
Find proteins for A7UPX0 (Influenza A virus) Explore A7UPX0 Go to UniProtKB: A7UPX0 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A7UPX0 | ||||
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 | G [auth E] H [auth E] I [auth E] J [auth A] K [auth A] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.80 Å
- R-Value Free: 0.260
- R-Value Work: 0.220
- R-Value Observed: 0.222
- Space Group: C 1 2 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 235.365 | α = 90 |
| b = 130.154 | β = 105.88 |
| c = 68.972 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
| PHASER | phasing |
| PDB_EXTRACT | data extraction |
Entry History & Funding Information
Deposition Data
- Released Date: 2015-05-27 Deposition Author(s): Schmidt, A.G., Harrison, S.C.
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID) | United States | P01AI089618 |
Revision History (Full details and data files)
- Version 1.0: 2015-05-27
Type: Initial release - Version 1.1: 2015-06-03
Changes: Database references - Version 1.2: 2017-09-13
Changes: Author supporting evidence, Derived calculations, Source and taxonomy - Version 1.3: 2019-12-11
Changes: Author supporting evidence, Derived calculations - Version 1.4: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Data collection, Derived calculations, Structure summary - Version 1.5: 2023-09-27
Changes: Data collection, Database references, Refinement description, Structure summary
