2RQF | pdb_00002rqf

Solution structure of juvenile hormone binding protein from silkworm in complex with JH III

• PDB DOI: https://doi.org/10.2210/pdb2RQF/pdb
• BMRB: 11073

• Classification: Hormone Binding Protein
• Organism(s): Bombyx mori
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-04-27 Released: 2010-05-05 
• Deposition Author(s): Suzuki, R., Fujimoto, Z., Shiotsuki, T., Momma, M., Tase, A., Yamazaki, T.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: structures with the least restraint violations 

Literature

Structural mechanism of JH delivery in hemolymph by JHBP of silkworm, Bombyx mori

Suzuki, R., Fujimoto, Z., Shiotsuki, T., Tsuchiya, W., Momma, M., Tase, A., Miyazawa, M., Yamazaki, T.

(2011) Sci Rep 1: 133-133

• PubMed: 22355650 
• DOI: https://doi.org/10.1038/srep00133
• Primary Citation Related Structures: 
  2RQF, 3AOS, 3AOT


• PubMed Abstract: 
  

  Juvenile hormone (JH) plays crucial roles in many aspects of the insect life. All the JH actions are initiated by transport of JH in the hemolymph as a complex with JH-binding protein (JHBP) to target tissues. Here, we report structural mechanism of JH delivery by JHBP based upon the crystal and solution structures of apo and JH-bound JHBP. In solution, apo-JHBP exists in equilibrium of multiple conformations with different orientations of the gate helix for the hormone-binding pocket ranging from closed to open forms. JH-binding to the gate-open form results in the fully closed JHBP-JH complex structure where the bound JH is completely buried inside the protein. JH-bound JHBP opens the gate helix to release the bound hormone likely by sensing the less polar environment at the membrane surface of target cells. This is the first report that provides structural insight into JH signaling.

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Organizational Affiliation: 
• Biomolecular Research Unit, National Institute of Agrobiological Sciences, 2-1-2 Kannondai, Tsukuba, Ibaraki 305-8602, Japan.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 25.05 kDa 
• Atom Count: 1,755 
• Modeled Residue Count: 227 
• Deposited Residue Count: 227 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hemolymph juvenile hormone binding protein	A	227	Bombyx mori	Mutation(s): 0
UniProt
Find proteins for Q9U556 (Bombyx mori) Explore Q9U556  Go to UniProtKB:  Q9U556

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
JH3	B [auth A]	methyl (2E,6E)-9-[(2R)-3,3-dimethyloxiran-2-yl]-3,7-dimethylnona-2,6-dienoate C16 H26 O3 QVJMXSGZTCGLHZ-HONBPKQLSA-N

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: structures with the least restraint violations 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-05-05 
Deposition Author(s): Suzuki, R., Fujimoto, Z., Shiotsuki, T., Momma, M., Tase, A., Yamazaki, T.

Revision History  

• Version 1.0: 2010-05-05
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2012-02-15
  Changes: Database references
• Version 1.3: 2013-06-19
  Changes: Database references
• Version 1.4: 2024-10-30
  Changes: Data collection, Database references, Derived calculations, Structure summary