2C3A
Structure of unliganded HSV gD reveals a mechanism for receptor- mediated activation of virus entry
- PDB DOI: https://doi.org/10.2210/pdb2C3A/pdb
- Classification: VIRAL PROTEIN
- Organism(s): Human alphaherpesvirus 1
- Expression System: Spodoptera frugiperda
- Mutation(s): Yes 
- Deposited: 2005-10-05 Released: 2005-12-21 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.50 Å
- R-Value Free: 0.275 
- R-Value Work: 0.226 
- R-Value Observed: 0.228 
wwPDB Validation   3D Report Full Report
This is version 2.1 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 |
GLYCOPROTEIN D | 286 | Human alphaherpesvirus 1 | Mutation(s): 2  | ||
UniProt | |||||
Find proteins for P57083 (Human herpesvirus 1 (strain Patton)) Explore P57083  Go to UniProtKB:  P57083 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P57083 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Small Molecules
Ligands 3 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
ZN Query on ZN | F [auth A], J [auth B], K [auth B], L [auth B], M [auth B] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N | |||
CL Query on CL | E [auth A], G [auth B] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M | |||
NA Query on NA | H [auth B], I [auth B] | SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.50 Å
- R-Value Free: 0.275 
- R-Value Work: 0.226 
- R-Value Observed: 0.228 
- Space Group: P 21 21 21
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 67.629 | α = 90 |
b = 79.105 | β = 90 |
c = 123.563 | γ = 90 |
Software Name | Purpose |
---|---|
REFMAC | refinement |
DENZO | data reduction |
SCALEPACK | data scaling |
MOLREP | phasing |
Entry History 
Deposition Data
- Released Date: 2005-12-21  Deposition Author(s): Krummenacher, C., Supekar, V.M., Whitbeck, J.C., Lazear, E., Connolly, S.A., Eisenberg, R.J., Cohen, G.H., Wiley, D.C., Carfi, A.
Revision History (Full details and data files)
- Version 1.0: 2005-12-21
Type: Initial release - Version 1.1: 2011-05-07
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Version format compliance - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Other, Structure summary - Version 2.1: 2023-12-13
Changes: Data collection, Database references, Refinement description, Structure summary