Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Cyclic - C3  (3D View)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors and generated by PQS (software)

Macromolecule Content

• Total Structure Weight: 66.88 kDa 
• Atom Count: 4996 
• Modelled Residue Count: 551 
• Deposited Residue Count: 582 
• Unique protein chains: 1

1UXA

ADENOVIRUS AD37 FIBRE HEAD in complex with sialyl-lactose

• PDB DOI: 10.2210/pdb1UXA/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Human adenovirus D37
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2004-02-24 Released: 2004-07-01 
• Deposition Author(s): Burmeister, W.P., Guilligay, D., Cusack, S., Wadell, G., Arnberg, N.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 0.205 
• R-Value Work: 0.180 
• R-Value Observed: 0.180 

Literature

Crystal Structure of Species D Adenovirus Fiber Knobs and Their Sialic Acid Binding Sites

Burmeister, W.P., Guilligay, D., Cusack, S., Wadell, G., Arnberg, N.

(2004) J Virol 78: 7727

• PubMed: 15220447 
• DOI: 10.1128/JVI.78.14.7727-7736.2004
• Primary Citation of Related Structures:  
  1UXA, 1UXB, 1UXE


• PubMed Abstract: 
  

Adenovirus serotype 37 (Ad37) belongs to species D and can cause epidemic keratoconjunctivitis, whereas the closely related Ad19p does not. Primary cell attachment by adenoviruses is mediated through receptor binding of the knob domain of the fiber protein. The knobs of Ad37 and Ad19p differ at only two positions, Lys240Glu and Asn340Asp. We report the high-resolution crystal structures of the Ad37 and Ad19p knobs, both native and in complex with sialic acid, which has been proposed as a receptor for Ad37. Overall, the Ad37 and Ad19p knobs are very similar to previously reported knob structures, especially to that of Ad5, which binds the coxsackievirus-adenovirus receptor (CAR). Ad37 and Ad19p knobs are structurally identical with the exception of the changed side chains and are structurally most similar to CAR-binding knobs (e.g., that of Ad5) rather than non-CAR-binding knobs (e.g., that of Ad3). The two mutations in Ad19p result in a partial loss of the exceptionally high positive surface charge of the Ad37 knob but do not affect sialic acid binding. This site is located on the top of the trimer and binds both alpha(2,3) and alpha(2,6)-linked sialyl-lactose, although only the sialic acid residue makes direct contact. Amino acid alignment suggests that the sialic acid binding site is conserved in several species D serotypes. Our results show that the altered viral tropism and cell binding of Ad19p relative to those of Ad37 are not explained by a different binding ability toward sialyl-lactose.

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Organizational Affiliation: 

Laboratoire de Virologie Moléculaire et Structurale, Université Joseph Fourier, Faculté de Médecine de Grenoble, F-38042 Grenoble cedex 9, France.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
FIBER PROTEIN	A, B, C	194	Human adenovirus D37	Mutation(s): 4  Gene Names: L5
UniProt
Find proteins for Q64823 (Human adenovirus D37) Explore Q64823  Go to UniProtKB:  Q64823

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Chain Length	2D Diagram	Glycosylation
N-acetyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose	D, E	2		N/A
Glycosylation Resources
GlyTouCan:  G30207PZ GlyCosmos:  G30207PZ GlyGen:  G30207PZ

Entity ID: 3
Molecule	Chains	Chain Length	2D Diagram	Glycosylation
N-acetyl-alpha-neuraminic acid-(2-6)-beta-D-galactopyranose	F	2		N/A
Glycosylation Resources
GlyTouCan:  G63069TR GlyCosmos:  G63069TR GlyGen:  G63069TR

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	G [auth A], H [auth B], J [auth C]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
ACT	I [auth B], K [auth C]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 0.205 
• R-Value Work: 0.180 
• R-Value Observed: 0.180 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.7	α = 90
b = 68.7	β = 94.9
c = 74.7	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
MOSFLM	data reduction
SCALA	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2004-02-24 
• Released Date: 2004-07-01 
Deposition Author(s): Burmeister, W.P., Guilligay, D., Cusack, S., Wadell, G., Arnberg, N.

Revision History  

• Version 1.0: 2004-07-01
  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