1NOB | pdb_00001nob

KNOB DOMAIN FROM ADENOVIRUS SEROTYPE 12

• PDB DOI: https://doi.org/10.2210/pdb1NOB/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Human adenovirus 12
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 1999-05-05 Released: 1999-11-24 
• Deposition Author(s): Bewley, M.C., Springer, K., Zhang, Y.B., Freimuth, P., Flanagan, J.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 
  0.290 (Depositor) 
• R-Value Work: 
  0.240 (Depositor) 

Starting Model: experimental

Literature

Structural analysis of the mechanism of adenovirus binding to its human cellular receptor, CAR.

Bewley, M.C., Springer, K., Zhang, Y.B., Freimuth, P., Flanagan, J.M.

(1999) Science 286: 1579-1583

• PubMed: 10567268 
• DOI: https://doi.org/10.1126/science.286.5444.1579
• Primary Citation Related Structures: 
  1KAC, 1NOB


• PubMed Abstract: 
  

  Binding of virus particles to specific host cell surface receptors is known to be an obligatory step in infection even though the molecular basis for these interactions is not well characterized. The crystal structure of the adenovirus fiber knob domain in complex with domain I of its human cellular receptor, coxsackie and adenovirus receptor (CAR), is presented here. Surface-exposed loops on knob contact one face of CAR, forming a high-affinity complex. Topology mismatches between interacting surfaces create interfacial solvent-filled cavities and channels that may be targets for antiviral drug therapy. The structure identifies key determinants of binding specificity, which may suggest ways to modify the tropism of adenovirus-based gene therapy vectors.

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Organizational Affiliation: 
• Biology Department, Brookhaven National Laboratory, Upton, NY 11973, USA.

Biological Assembly 1  

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

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

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 119.67 kDa 
• Atom Count: 8,406 
• Modeled Residue Count: 1,110 
• Deposited Residue Count: 1,110 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (FIBER KNOB PROTEIN)	A, B, C, D, E, F	185	Human adenovirus 12	Mutation(s): 0
UniProt
Find proteins for P36711 (Human adenovirus A serotype 12) Explore P36711  Go to UniProtKB:  P36711

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free:  0.290 (Depositor) 
• R-Value Work:  0.240 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 61.91	α = 90
b = 104.82	β = 96.9
c = 77.19	γ = 90

Software Package:

Software Name	Purpose
AMoRE	phasing
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 1999-11-24 
Deposition Author(s): Bewley, M.C., Springer, K., Zhang, Y.B., Freimuth, P., Flanagan, J.M.

Revision History  

• Version 1.0: 1999-11-24
  Type: Initial release
  
• Version 1.1: 2008-04-26
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-08-16
  Changes: Data collection, Database references, Refinement description