1NY4 | pdb_00001ny4

Solution structure of the 30S ribosomal protein S28E from Pyrococcus horikoshii. Northeast Structural Genomics Consortium target JR19.

• PDB DOI: https://doi.org/10.2210/pdb1NY4/pdb
• BMRB: 5691

• Classification: RNA BINDING PROTEIN
• Organism(s): Pyrococcus horikoshii
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2003-02-11 Released: 2003-09-02 
• Deposition Author(s): Aramini, J.M., Cort, J.R., Huang, Y.J., Xiao, R., Acton, T.B., Ho, C.K., Shih, L.-Y., Kennedy, M.A., Montelione, G.T., Northeast Structural Genomics Consortium (NESG)

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 56 
• Conformers Submitted: 10 
• Selection Criteria: target function 

Literature

Solution NMR structure of the 30S ribosomal protein S28E from Pyrococcus horikoshii.

Aramini, J.M., Huang, Y.J., Cort, J.R., Goldsmith-Fischman, S., Xiao, R., Shih, L.-Y., Ho, C.K., Liu, J., Rost, B., Honig, B., Kennedy, M.A., Acton, T.B., Montelione, G.T.

(2003) Protein Sci 12: 2823-2830

• PubMed: 14627742 
• DOI: https://doi.org/10.1110/ps.03359003
• Primary Citation Related Structures: 
  1NY4


• PubMed Abstract: 
  

  We report NMR assignments and solution structure of the 71-residue 30S ribosomal protein S28E from the archaean Pyrococcus horikoshii, target JR19 of the Northeast Structural Genomics Consortium. The structure, determined rapidly with the aid of automated backbone resonance assignment (AutoAssign) and automated structure determination (AutoStructure) software, is characterized by a four-stranded beta-sheet with a classic Greek-key topology and an oligonucleotide/oligosaccharide beta-barrel (OB) fold. The electrostatic surface of S28E exhibits positive and negative patches on opposite sides, the former constituting a putative binding site for RNA. The 13 C-terminal residues of the protein contain a consensus sequence motif constituting the signature of the S28E protein family. Surprisingly, this C-terminal segment is unstructured in solution.

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Organizational Affiliation: 
• Northeast Structural Genomics Consortium Center for Advanced Biotechnology and Medicine (CABM), Department of Molecular Biology and Biochemistry, Rutgers University, Piscataway, New Jersey 08854, USA.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 9.39 kDa 
• Atom Count: 566 
• Modeled Residue Count: 71 
• Deposited Residue Count: 82 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
30S ribosomal protein S28E	A	82	Pyrococcus horikoshii	Mutation(s): 0  Gene Names: RPS28E
UniProt
Find proteins for P61030 (Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)) Explore P61030  Go to UniProtKB:  P61030

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 56 
• Conformers Submitted: 10 
• Selection Criteria: target function 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-09-02 
Deposition Author(s): Aramini, J.M., Cort, J.R., Huang, Y.J., Xiao, R., Acton, T.B., Ho, C.K., Shih, L.-Y., Kennedy, M.A., Montelione, G.T., Northeast Structural Genomics Consortium (NESG)

Revision History  

• Version 1.0: 2003-09-02
  Type: Initial release
  
• Version 1.1: 2008-04-29
  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
• Version 1.4: 2024-05-22
  Changes: Data collection