2JVA | pdb_00002jva

NMR solution structure of peptidyl-tRNA hydrolase domain protein from Pseudomonas syringae pv. tomato. Northeast Structural Genomics Consortium target PsR211

• PDB DOI: https://doi.org/10.2210/pdb2JVA/pdb
• BMRB: 15471

• Classification: HYDROLASE
• Organism(s): Pseudomonas syringae pv. tomato str. DC3000
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2007-09-14 Released: 2007-10-02 
• Deposition Author(s): Singarapu, K.K., Sukumaran, D., Parish, D., Eletsky, A., Zhang, Q., Zhao, L., Jiang, M., Maglaqui, M., Xiao, R., Liu, J., Baran, M.C., Swapna, G.V.T., Huang, Y.J., Acton, T.B., Rost, B., Montelione, G.T., Szyperski, T., Northeast Structural Genomics Consortium (NESG)

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Literature

NMR structure of the peptidyl-tRNA hydrolase domain from Pseudomonas syringae expands the structural coverage of the hydrolysis domains of class 1 peptide chain release factors.

Singarapu, K.K., Xiao, R., Acton, T., Rost, B., Montelione, G.T., Szyperski, T.

(2008) Proteins 71: 1027-1031

• PubMed: 18247350 
• DOI: https://doi.org/10.1002/prot.21947
• Primary Citation Related Structures: 
  2JVA


• PubMed Abstract: 
  

  The NMR structure of the peptidyl-tRNA hydrolase (PTH) domain from Pseudomonas syringae ( P. syringae PTH domain) was solved by using recently devised protocol for high throughput protein structure determination. The P. syringae PTH domain belongs to a large Pfam family PF00472, which consists of at least 1549 proteins annotated as ‘hydrolysis domains of peptidyl-tRNA’. The structure of P. syringae PTH domain expands the ‘structural coverage’ of the PFam family.

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Organizational Affiliation: 
• Department of Chemistry, State University of New York at Buffalo, Buffalo, New York 14260-3000, USA.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 12.1 kDa 
• Atom Count: 851 
• Modeled Residue Count: 108 
• Deposited Residue Count: 108 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Peptidyl-tRNA hydrolase domain protein	A	108	Pseudomonas syringae pv. tomato str. DC3000	Mutation(s): 0  Gene Names: PSPTO_1818 EC: 3.1.1.29
UniProt
Find proteins for Q885L4 (Pseudomonas syringae pv. tomato (strain ATCC BAA-871 / DC3000)) Explore Q885L4  Go to UniProtKB:  Q885L4

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-10-02 
Deposition Author(s): Singarapu, K.K., Sukumaran, D., Parish, D., Eletsky, A., Zhang, Q., Zhao, L., Jiang, M., Maglaqui, M., Xiao, R., Liu, J., Baran, M.C., Swapna, G.V.T., Huang, Y.J., Acton, T.B., Rost, B., Montelione, G.T., Szyperski, T., Northeast Structural Genomics Consortium (NESG)

Revision History  

• Version 1.0: 2007-10-02
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Source and taxonomy, Version format compliance
• Version 1.2: 2012-10-24
  Changes: Database references
• Version 1.3: 2020-02-19
  Changes: Data collection, Database references, Other
• Version 1.4: 2023-06-14
  Changes: Database references, Other
• Version 1.5: 2024-05-08
  Changes: Data collection, Database references