Biological Assembly 1  

 3D View: Structure

Standalone Viewers  
Protein Workshop | Ligand Explorer

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A2B 

Biological assembly 1 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 66597.13 
• Atom Count: 4664 
• Residue Count: 600 
• Unique protein chains: 2

5FJB

Cyclophilin A Stabilize HIV-1 Capsid through a Novel Non- canonical Binding Site

• DOI: 10.2210/pdb5FJB/pdb
• EMDataResource: EMD-3076

• Classification: ISOMERASE
• Organism(s): Homo sapiens, Human immunodeficiency virus type 1 group M subtype B (isolate HXB2)
• Expression System: Escherichia coli


• Deposited: 2015-10-07 Released: 2016-03-16 
• Deposition Author(s): Liu, C., Perilla, J.R., Ning, J., Lu, M., Hou, G., Ramalhu, R., Bedwell, G.J., Ahn, J., Shi, J., Gronenborn, A.M., Prevelige Jr, P.E., Rousso, I., Aiken, C., Polenova, T., Schulten, K., Zhang, P.

---

Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 9 Å
• Aggregation State: HELICAL ARRAY 
• Reconstruction Method: HELICAL 

Literature

Cyclophilin a Stabilizes the HIV-1 Capsid Through a Novel Non-Canonical Binding Site.

Liu, C., Perilla, J.R., Ning, J., Lu, M., Hou, G., Ramalho, R., Himes, B.A., Zhao, G., Bedwell, G.J., Byeon, I., Ahn, J., Gronenborn, A.M., Prevelige, P.E., Rousso, I., Aiken, C., Polenova, T., Schulten, K., Zhang, P.

(2016) Nat.Commun. 7: 10714

• PubMed: 26940118 
• DOI: 10.1038/ncomms10714


• PubMed Abstract: 
  

The host cell factor cyclophilin A (CypA) interacts directly with the HIV-1 capsid and regulates viral infectivity. Although the crystal structure of CypA in complex with the N-terminal domain of the HIV-1 capsid protein (CA) has been known for nearly two decades, how CypA interacts with the viral capsid and modulates HIV-1 infectivity remains unclear. We determined the cryoEM structure of CypA in complex with the assembled HIV-1 capsid at 8-Å resolution. The structure exhibits a distinct CypA-binding pattern in which CypA selectively bridges the two CA hexamers along the direction of highest curvature. EM-guided all-atom molecular dynamics simulations and solid-state NMR further reveal that the CypA-binding pattern is achieved by single-CypA molecules simultaneously interacting with two CA subunits, in different hexamers, through a previously uncharacterized non-canonical interface. These results provide new insights into how CypA stabilizes the HIV-1 capsid and is recruited to facilitate HIV-1 infection.

---

Organizational Affiliation: 

Department of Structural Biology, University of Pittsburgh School of Medicine, Pittsburgh, Pennsylvania 15260, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
GAG POLYPROTEIN	A, B	218	Human immunodeficiency virus type 1 group M subtype B (isolate HXB2)	Mutation(s): 0  Gene Names: gag
Find proteins for P04591 (Human immunodeficiency virus type 1 group M subtype B (isolate HXB2)) Go to UniProtKB:  P04591

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
PEPTIDYL-PROLYL CIS-TRANS ISOMERASE A	C	164	Homo sapiens	Mutation(s): 0  Gene Names: PPIA (CYPA) EC: 5.2.1.8
Find proteins for P62937 (Homo sapiens) Go to Gene View: PPIA Go to UniProtKB:  P62937

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 9 Å
• Aggregation State: HELICAL ARRAY 
• Reconstruction Method: HELICAL 

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2015-10-07 
• Released Date: 2016-03-16 
• Deposition Author(s): Liu, C., Perilla, J.R., Ning, J., Lu, M., Hou, G., Ramalhu, R., Bedwell, G.J., Ahn, J., Shi, J., Gronenborn, A.M., Prevelige Jr, P.E., Rousso, I., Aiken, C., Polenova, T., Schulten, K., Zhang, P.

Revision History 

• Version 1.0: 2016-03-16
  Type: Initial release
• Version 1.1: 2017-08-23
  Type: Data collection