1WVO | pdb_00001wvo

Solution structure of RSGI RUH-029, an antifreeze protein like domain in human N-acetylneuraminic acid phosphate synthase gene.

• PDB DOI: https://doi.org/10.2210/pdb1WVO/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Mutation(s): No 


• Deposited: 2004-12-22 Released: 2006-01-03 
• Deposition Author(s): Ito, Y., Hamada, T., Hayashi, F., Yokoyama, S., Hirota, H., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: target function,structures with the lowest energy,structures with the least restraint violations 

Literature

Solution structure of the antifreeze-like domain of human sialic acid synthase

Hamada, T., Ito, Y., Abe, T., Hayashi, F., Guntert, P., Inoue, M., Kigawa, T., Terada, T., Shirouzu, M., Yoshida, M., Tanaka, A., Sugano, S., Yokoyama, S., Hirota, H.

(2006) Protein Sci 15: 1010-1016

• PubMed: 16597820 
• DOI: https://doi.org/10.1110/ps.051700406
• Primary Citation Related Structures: 
  1WVO


• PubMed Abstract: 
  

  The structure of the C-terminal antifreeze-like (AFL) domain of human sialic acid synthase was determined by NMR spectroscopy. The structure comprises one alpha- and two single-turn 3(10)-helices and two beta-strands, and is similar to those of the type III antifreeze proteins. Evolutionary trace analyses of the type III antifreeze protein family suggested that the class-specific residues in the human and bacterial AFL domains are important for their substrate binding, while the class-specific residues of the fish antifreeze proteins are gathered on the ice-binding surface.

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Organizational Affiliation: 
• RIKEN Genomic Sciences Center, Yokohama 230-0045, Japan.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 8.27 kDa 
• Atom Count: 576 
• Modeled Residue Count: 79 
• Deposited Residue Count: 79 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sialic acid synthase	A	79	Homo sapiens	Mutation(s): 0  EC: 2.5.1.56 (PDB Primary Data), 2.5.1.57 (PDB Primary Data), 2.5.1.132 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NR45 (Homo sapiens) Explore Q9NR45  Go to UniProtKB:  Q9NR45
PHAROS:  Q9NR45 GTEx:  ENSG00000095380

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: target function,structures with the lowest energy,structures with the least restraint violations 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-01-03 
Deposition Author(s): Ito, Y., Hamada, T., Hayashi, F., Yokoyama, S., Hirota, H., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History  

• Version 1.0: 2006-01-03
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2022-03-02
  Changes: Data collection, Database references, Derived calculations
• Version 1.4: 2024-05-29
  Changes: Data collection