2NAF

Solution structure of peptidyl-tRNA hydrolase from Mycobacterium smegmatis

• PDB DOI: https://doi.org/10.2210/pdb2NAF/pdb

• Classification: HYDROLASE
• Organism(s): Mycolicibacterium smegmatis MC2 155
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2015-12-23 Released: 2017-01-11 
• Deposition Author(s): Yadav, R., Pathak, P., Fatma, F., Kabra, A., Pulavarti, S., Jain, A., Kumar, A., Shukla, V., Arora, A.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 500 
• Conformers Submitted: 10 
• Selection Criteria: target function 

Literature

Structural characterization of peptidyl-tRNA hydrolase from Mycobacterium smegmatis by NMR spectroscopy.

Kabra, A., Fatma, F., Shahid, S., Pathak, P.P., Yadav, R., Pulavarti, S.V., Tripathi, S., Jain, A., Arora, A.

(2016) Biochim Biophys Acta 1864: 1304-1314

• PubMed: 27378575 
• DOI: https://doi.org/10.1016/j.bbapap.2016.06.013
• Primary Citation of Related Structures:  
  2NAF


• PubMed Abstract: 
  

  Accumulation of toxic peptidyl-tRNAs in the bacterial cytoplasm is averted by the action of peptidyl-tRNA hydrolase (Pth), which cleaves peptidyl-tRNA into free tRNA and peptide. NMR studies are needed for a protein homolog with a complete crystal structure, for comparison with the NMR structure of Mycobacterium tuberculosis Pth.

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Organizational Affiliation: 

Molecular and Structural Biology Division, CSIR-Central Drug Research Institute, Lucknow 226031, India.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 20.31 kDa 
• Atom Count: 1,430 
• Modelled Residue Count: 191 
• Deposited Residue Count: 191 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Peptidyl-tRNA hydrolase	A	191	Mycolicibacterium smegmatis MC2 155	Mutation(s): 0  Gene Names: MSMEG_5432, MSMEI_5283, pth EC: 3.1.1.29
UniProt
Find proteins for A0R3D3 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)) Explore A0R3D3  Go to UniProtKB:  A0R3D3

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 500 
• Conformers Submitted: 10 
• Selection Criteria: target function 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-01-11 
Deposition Author(s): Yadav, R., Pathak, P., Fatma, F., Kabra, A., Pulavarti, S., Jain, A., Kumar, A., Shukla, V., Arora, A.

Revision History  

• Version 1.0: 2017-01-11
  Type: Initial release
  
• Version 1.1: 2023-06-14
  Changes: Data collection, Database references, Other