5GVO | pdb_00005gvo

Solution NMR structure of a new lasso peptide sphaericin

• PDB DOI: https://doi.org/10.2210/pdb5GVO/pdb
• BMRB: 36017

• Classification: UNKNOWN FUNCTION
• Organism(s): Planomonospora sphaerica
• Mutation(s): No 


• Deposited: 2016-09-06 Released: 2017-04-05 
• Deposition Author(s): Hemmi, H., Kodani, S., Inoue, Y., Suzuki, M., Dohra, H., Suzuki, T., Ohnishi-Kameyama, M.
• Funding Organization(s): Japan Society for the Promotion of Science

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 300 
• Conformers Submitted: 15 
• Selection Criteria: structures with the lowest energy 

Literature

Sphaericin, a Lasso Peptide from the Rare Actinomycete Planomonospora sphaerica

Kodani, S., Inoue, Y., Suzuki, M., Dohra, H., Suzuki, T., Hemmi, H., Ohnishi-Kameyama, M.

(2017) European J Org Chem : 1177-1183

• DOI: https://doi.org/10.1002/ejoc.201601334

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 2.18 kDa 
• Atom Count: 154 
• Modeled Residue Count: 18 
• Deposited Residue Count: 18 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Uncharacterized protein	A	18	Planomonospora sphaerica	Mutation(s): 0
UniProt
Find proteins for A0A171DJY5 (Planomonospora sphaerica) Explore A0A171DJY5  Go to UniProtKB:  A0A171DJY5

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 300 
• Conformers Submitted: 15 
• Selection Criteria: structures with the lowest energy 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2017-04-05 
Deposition Author(s): Hemmi, H., Kodani, S., Inoue, Y., Suzuki, M., Dohra, H., Suzuki, T., Ohnishi-Kameyama, M.

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Funding Organization	Location	Grant Number
Japan Society for the Promotion of Science	Japan	16K01913

Revision History  

• Version 1.0: 2017-04-05
  Type: Initial release
  
• Version 1.1: 2024-11-20
  Changes: Data collection, Database references, Derived calculations, Structure summary