Structure-based assignment of the biochemical function of hypothetical protein MJ0577: A test case of structural genomics

Experimental Data Snapshot

  • Resolution: 1.70 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.210 

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Structure-based assignment of the biochemical function of a hypothetical protein: a test case of structural genomics.

Zarembinski, T.I.Hung, L.-W.Mueller-Dieckmann, H.J.Kim, K.-K.Yokota, H.Kim, R.Kim, S.-H.

(1998) Proc Natl Acad Sci U S A 95: 15189-15193

  • DOI: https://doi.org/10.1073/pnas.95.26.15189
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    Many small bacterial, archaebacterial, and eukaryotic genomes have been sequenced, and the larger eukaryotic genomes are predicted to be completely sequenced within the next decade. In all genomes sequenced to date, a large portion of these organisms' predicted protein coding regions encode polypeptides of unknown biochemical, biophysical, and/or cellular functions. Three-dimensional structures of these proteins may suggest biochemical or biophysical functions. Here we report the crystal structure of one such protein, MJ0577, from a hyperthermophile, Methanococcus jannaschii, at 1.7-A resolution. The structure contains a bound ATP, suggesting MJ0577 is an ATPase or an ATP-mediated molecular switch, which we confirm by biochemical experiments. Furthermore, the structure reveals different ATP binding motifs that are shared among many homologous hypothetical proteins in this family. This result indicates that structure-based assignment of molecular function is a viable approach for the large-scale biochemical assignment of proteins and for discovering new motifs, a basic premise of structural genomics.

  • Organizational Affiliation

    Physical Biosciences Division of Lawrence Berkeley National Laboratory, University of California, Berkeley, CA 94720, USA.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
A, B
162Methanocaldococcus jannaschiiMutation(s): 0 
Gene Names: MJ0577
Find proteins for Q57997 (Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440))
Explore Q57997 
Go to UniProtKB:  Q57997
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ57997
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 1.70 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.210 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 95.53α = 90
b = 96.08β = 90
c = 37.5γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

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Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 1998-12-23
    Type: Initial release
  • Version 1.1: 2008-04-26
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2023-12-27
    Changes: Data collection, Database references, Derived calculations