5WOT

NMR solution structure of a-lytic protease using two 4D-spectra


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Automated NMR resonance assignments and structure determination using a minimal set of 4D spectra.

Evangelidis, T.Nerli, S.Novacek, J.Brereton, A.E.Karplus, P.A.Dotas, R.R.Venditti, V.Sgourakis, N.G.Tripsianes, K.

(2018) Nat Commun 9: 384-384

  • DOI: 10.1038/s41467-017-02592-z
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Automated methods for NMR structure determination of proteins are continuously becoming more robust. However, current methods addressing larger, more complex targets rely on analyzing 6-10 complementary spectra, suggesting the need for alternative ap ...

    Automated methods for NMR structure determination of proteins are continuously becoming more robust. However, current methods addressing larger, more complex targets rely on analyzing 6-10 complementary spectra, suggesting the need for alternative approaches. Here, we describe 4D-CHAINS/autoNOE-Rosetta, a complete pipeline for NOE-driven structure determination of medium- to larger-sized proteins. The 4D-CHAINS algorithm analyzes two 4D spectra recorded using a single, fully protonated protein sample in an iterative ansatz where common NOEs between different spin systems supplement conventional through-bond connectivities to establish assignments of sidechain and backbone resonances at high levels of completeness and with a minimum error rate. The 4D-CHAINS assignments are then used to guide automated assignment of long-range NOEs and structure refinement in autoNOE-Rosetta. Our results on four targets ranging in size from 15.5 to 27.3‚ÄČkDa illustrate that the structures of proteins can be determined accurately and in an unsupervised manner in a matter of days.


    Organizational Affiliation

    CEITEC-Central European Institute of Technology, Masaryk University, Kamenice 5, Brno, 62500, Czech Republic.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Alpha-lytic protease
A
198Lysobacter enzymogenesMutation(s): 0 
Gene Names: alpha-LP
EC: 3.4.21.12
Find proteins for P00778 (Lysobacter enzymogenes)
Go to UniProtKB:  P00778
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the lowest energy 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious DiseasesUnited StatesAI112573
National Institutes of Health/Office of the DirectorUnited StatesS10OD018455

Revision History 

  • Version 1.0: 2018-02-07
    Type: Initial release