Biological Assembly 1  

 3D View: Structure | Ligand Interaction

Global Symmetry: Icosahedral - I  (3D View)
Global Stoichiometry: Hetero 180-mer - A60B60C60 Pseudo Symmetry: Icosahedral - I  (3D View)
Pseudo Stoichiometry: Hetero 180-mer - A120B60 

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

Macromolecule Content

• Total Structure Weight: 92.77 kDa 
• Atom Count: 6244 
• Residue Count: 793 
• Unique protein chains: 4

2HWF

A COMPARISON OF THE ANTI-RHINOVIRAL DRUG BINDING POCKET IN HRV14 AND HRV1A

• DOI: 10.2210/pdb2HWF/pdb

• Classification: VIRUS
• Organism(s): Human rhinovirus 1A
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 1994-01-25 Released: 1994-09-30 
• Deposition Author(s): Kim, K.H., Rossmann, M.G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.80 Å

Literature

A comparison of the anti-rhinoviral drug binding pocket in HRV14 and HRV1A.

Kim, K.H., Willingmann, P., Gong, Z.X., Kremer, M.J., Chapman, M.S., Minor, I., Oliveira, M.A., Rossmann, M.G., Andries, K., Diana, G.D., Dutko, F.J., McKinlay, M.A., Pevear, D.C.

(1993) J Mol Biol 230: 206-227

• PubMed: 8383771 
• DOI: 10.1006/jmbi.1993.1137
• Primary Citation of Related Structures:  
  2HWF, 2HWE, 2HWD, 2HWC, 2HWB


• PubMed Abstract: 
  

The three-dimensional structures of two human rhinovirus serotypes (HRV14 and HRV1A) are compared when complexed with various antiviral agents. Although these agents all bind into the same hydrophobic pocket, the exact viral-drug interactions differ. In the absence of drugs, the pocket is occupied by a fatty acid in HRV1A, but is empty in HRV14 except for two water molecules. The conformation of each drug is dependent upon the shape of the hydrophobic pocket. In HRV14 the major residues determining the shape of the binding site are Y1128, P1174 and M1224, corresponding to I1125, M1169 and I1220 in HRV1A. When there is no cofactor or a drug in the pocket, the entrance to the pocket is open. However, the entrance is closed when the pocket is occupied by a cofactor or a drug. There are relatively small conformational changes when the agents displace the natural cofactor in HRV1A. In contrast, there are much larger conformational changes on binding a drug in HRV14. These differences cause an inhibition of viral attachment in HRV14 but not in HRV1A. Binding of the drugs results in three additional interprotomer hydrogen bonds in HRV14 and one in HRV1A. These hydrogen bonds and a potential loss of flexibility upon efficient packing of the pocket may contribute to the inhibition of uncoating in both serotypes.

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Related Citations: 

• Human Rhinovirus 14 Complexed with Antiviral Compound R 61837
  Chapman, M.S., Minor, I., Rossmann, M.G., Diana, G.D., Andries, K.
  (1991) J Mol Biol 217: 455

• Crystal Structure of Human Rhinovirus Serotype 1A (Hrv1A)
  Kim, S., Smith, T.J., Chapman, M.S., Rossmann, M.G., Pevear, D.C., Dutko, F.J., Felock, P.J., Diana, G.D., Mckinlay, M.A.
  (1989) J Mol Biol 210: 91

• Structural Analysis of a Series of Antiviral Agents Complexed with Human Rhinovirus 14
  Badger, J., Minor, I., Kremer, M.J., Oliveira, M.A., Smith, T.J., Griffith, J.P., Guerin, D.M.A., Krishnaswamy, S., Luo, M., Rossmann, M.G., Mckinlay, M.A., Diana, G.D., Dutko, F.J., Fancher, M., Rueckert, R.R., Heinz, B.A.
  (1988) Biochemistry 85: 3304

• The Site of Attachment in Human Rhinovirus 14 for Antiviral Agents that Inhibit Uncoating
  Smith, T.J., Kremer, M.J., Luo, M., Vriend, G., Arnold, E., Kamer, G., Rossmann, M.G., Mckinlay, M.A., Diana, G.D., Otto, M.J.
  (1986) Science 233: 1286

• Structure of a Human Common Cold Virus and Functional Relationship to Other Picornaviruses
  Rossmann, M.G., Arnold, E., Erickson, J.W., Frankenberger, E.A., Griffith, J.P., Hecht, H.-J., Johnson, J.E., Kamer, G., Luo, M., Mosser, A.G., Rueckert, R.R., Sherry, B., Vriend, G.
  (1985) Nature 317: 145

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Organizational Affiliation: 

Department of Biological Sciences, Purdue University West Lafayette, IN 47907.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HUMAN RHINOVIRUS 1A COAT PROTEIN (SUBUNIT VP1)	1	287	Human rhinovirus 1A	Mutation(s): 0  EC: 3.4.22.29 (UniProt), 3.6.1.15 (UniProt), 3.4.22.28 (UniProt), 2.7.7.48 (UniProt)
Find proteins for P23008 (Human rhinovirus 1A) Explore P23008  Go to UniProtKB:  P23008

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
HUMAN RHINOVIRUS 1A COAT PROTEIN (SUBUNIT VP2)	2	263	Human rhinovirus 1A	Mutation(s): 0  EC: 3.4.22.29 (UniProt), 3.6.1.15 (UniProt), 3.4.22.28 (UniProt), 2.7.7.48 (UniProt)
Find proteins for P23008 (Human rhinovirus 1A) Explore P23008  Go to UniProtKB:  P23008

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
HUMAN RHINOVIRUS 1A COAT PROTEIN (SUBUNIT VP3)	3	238	Human rhinovirus 1A	Mutation(s): 0  EC: 3.4.22.29 (UniProt), 3.6.1.15 (UniProt), 3.4.22.28 (UniProt), 2.7.7.48 (UniProt)
Find proteins for P23008 (Human rhinovirus 1A) Explore P23008  Go to UniProtKB:  P23008

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
HUMAN RHINOVIRUS 1A COAT PROTEIN (SUBUNIT VP4)	4	44	Human rhinovirus 1A	Mutation(s): 0  EC: 3.4.22.29 (UniProt), 3.6.1.15 (UniProt), 3.4.22.28 (UniProt), 2.7.7.48 (UniProt)
Find proteins for P23008 (Human rhinovirus 1A) Explore P23008  Go to UniProtKB:  P23008

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
JEN	1	3-METHOXY-6-[4-(3-METHYLPHENYL)-1-PIPERAZINYL]PYRIDAZINE C16 H20 N4 O DDOAUTHWSCUHQA-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.80 Å
• Space Group: P 6₃ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 341.3	α = 90
b = 341.3	β = 90
c = 465.9	γ = 120

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1994-01-25 
• Released Date: 1994-09-30 
Deposition Author(s): Kim, K.H., Rossmann, M.G.

Revision History 

• Version 1.0: 1994-09-30
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2012-03-07
  Changes: Source and taxonomy