1JE3

Solution Structure of EC005 from Escherichia coli

• PDB DOI:  https://doi.org/10.2210/pdb1JE3/pdb
• BMRB: 5059

• Classification: STRUCTURAL GENOMICS
• Organism(s): Escherichia coli
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2001-06-15 Released: 2002-03-06 
• Deposition Author(s): Yee, A., Gutierrez, P., Kozlov, G., Denisov, A., Gehring, K., Arrowsmith, C.

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Experimental Data Snapshot

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

Literature

An NMR approach to structural proteomics.

Yee, A., Chang, X., Pineda-Lucena, A., Wu, B., Semesi, A., Le, B., Ramelot, T., Lee, G.M., Bhattacharyya, S., Gutierrez, P., Denisov, A., Lee, C.H., Cort, J.R., Kozlov, G., Liao, J., Finak, G., Chen, L., Wishart, D., Lee, W., McIntosh, L.P., Gehring, K., Kennedy, M.A., Edwards, A.M., Arrowsmith, C.H.

(2002) Proc Natl Acad Sci U S A 99: 1825-1830

• PubMed: 11854485 
• DOI: https://doi.org/10.1073/pnas.042684599
• Primary Citation of Related Structures:  
  1JCU, 1JDQ, 1JE3, 1JRM, 1JW2, 1JW3, 1RYJ, 1RYK


• PubMed Abstract: 
  

The influx of genomic sequence information has led to the concept of structural proteomics, the determination of protein structures on a genome-wide scale. Here we describe an approach to structural proteomics of small proteins using NMR spectroscopy. Over 500 small proteins from several organisms were cloned, expressed, purified, and evaluated by NMR. Although there was variability among proteomes, overall 20% of these proteins were found to be readily amenable to NMR structure determination. NMR sample preparation was centralized in one facility, and a distributive approach was used for NMR data collection and analysis. Twelve structures are reported here as part of this approach, which allowed us to infer putative functions for several conserved hypothetical proteins.

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Organizational Affiliation: 

Ontario Cancer Institute and Department of Medical Biophysics, University of Toronto, 101 College Street, Toronto, ON, Canada M5G 1L7.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 10.82 kDa 
• Atom Count: 757 
• Modelled Residue Count: 97 
• Deposited Residue Count: 97 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HYPOTHETICAL 8.6 KDA PROTEIN IN AMYA-FLIE INTERGENIC REGION	A	97	Escherichia coli	Mutation(s): 0  Gene Names: yedF
UniProt
Find proteins for P0AA31 (Escherichia coli (strain K12)) Explore P0AA31  Go to UniProtKB:  P0AA31

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: 2002-03-06 
Deposition Author(s): Yee, A., Gutierrez, P., Kozlov, G., Denisov, A., Gehring, K., Arrowsmith, C.

Revision History  

• Version 1.0: 2002-03-06
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2022-02-23
  Changes: Data collection, Database references, Derived calculations