5VR1 | pdb_00005vr1

Structure of a Turripeptide from Unedogemmula bisaya venom

• PDB DOI: https://doi.org/10.2210/pdb5VR1/pdb
• BMRB: 30291

• Classification: UNKNOWN FUNCTION
• Organism(s): Unedogemmula bisaya
• Mutation(s): No 


• Deposited: 2017-05-09 Released: 2017-11-15 
• Deposition Author(s): Daly, N.L., Imperial, J.S.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: target function 

Literature

Structure and Biological Activity of a Turripeptide from Unedogemmula bisaya Venom.

Omaga, C.A., Carpio, L.D., Imperial, J.S., Daly, N.L., Gajewiak, J., Flores, M.S., Espino, S.S., Christensen, S., Filchakova, O.M., Lopez-Vera, E., Raghuraman, S., Olivera, B.M., Concepcion, G.P.

(2017) Biochemistry 56: 6051-6060

• PubMed: 29090914 
• DOI: https://doi.org/10.1021/acs.biochem.7b00485
• Primary Citation Related Structures: 
  5VR1


• PubMed Abstract: 
  

  The turripeptide ubi3a was isolated from the venom of the marine gastropod Unedogemmula bisaya, family Turridae, by bioassay-guided purification; both native and synthetic ubi3a elicited prolonged tremors when injected intracranially into mice. The sequence of the peptide, DCCOCOAGAVRCRFACC-NH ₂ (O = 4-hydroxyproline) follows the framework III pattern for cysteines (CC-C-C-CC) in the M-superfamily of conopeptides. The three-dimensional structure determined by NMR spectroscopy indicated a disulfide connectivity that is not found in conopeptides with the cysteine framework III: C ₁ -C _4, C ₂ -C ₆ , C ₃ -C ₅ . The peptide inhibited the activity of the α9α10 nicotinic acetylcholine receptor with relatively low affinity (IC ₅₀ , 10.2 μM). Initial Constellation Pharmacology data revealed an excitatory activity of ubi3a on a specific subset of mouse dorsal root ganglion neurons.

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Organizational Affiliation: 
• Marine Science Institute, University of the Philippines , P. Velasquez Street, Diliman, Quezon City 1101, Philippines.
Department of Biology, University of Utah , 257S 1400 E, Salt Lake City, Utah 84112, United States.
Department of Chemistry, University of Utah , 315 1400 E, Salt Lake City, Utah 84112, United States.
Centre for Biodiscovery and Molecular Development of Therapeutics, James Cook University , Cairns, Queensland 4870, Australia.
Washington University School of Medicine , 660 South Euclid Avenue, St. Louis, Missouri 63110, United States.
Biology Department, School of Science and Technology, Nazarbayev University , Qabanbay Batyr Avenue 53, Astana 010000, Kazakhstan.
Instituto de Ciencias del Mar y Limnologia, Universidad Nacional Autonoma de Mexico , 04510 Coyoacan, DF, Mexico.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 1.81 kDa 
• Atom Count: 120 
• Modeled Residue Count: 18 
• Deposited Residue Count: 18 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Turripeptide	A	18	Unedogemmula bisaya	Mutation(s): 0

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
HYP	A	L-PEPTIDE LINKING	C5 H9 N O3		PRO

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: target function 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-11-15 
Deposition Author(s): Daly, N.L., Imperial, J.S.

Revision History  

• Version 1.0: 2017-11-15
  Type: Initial release
  
• Version 1.1: 2017-11-22
  Changes: Database references
• Version 1.2: 2023-06-14
  Changes: Data collection, Database references, Other