Crystal structure of glycine cleavage system protein H from Mycobacterium tuberculosis

Experimental Data Snapshot

  • Resolution: 1.75 Å
  • R-Value Free: 0.220 
  • R-Value Work: 0.181 
  • R-Value Observed: 0.183 

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X-ray structure determination of the glycine cleavage system protein H of Mycobacterium tuberculosis using an inverse Compton synchrotron X-ray source.

Abendroth, J.McCormick, M.S.Edwards, T.E.Staker, B.Loewen, R.Gifford, M.Rifkin, J.Mayer, C.Guo, W.Zhang, Y.Myler, P.Kelley, A.Analau, E.Hewitt, S.N.Napuli, A.J.Kuhn, P.Ruth, R.D.Stewart, L.J.

(2010) J Struct Funct Genomics 11: 91-100

  • DOI: https://doi.org/10.1007/s10969-010-9087-6
  • Primary Citation of Related Structures:  
    3HGB, 3IFT

  • PubMed Abstract: 

    Structural genomics discovery projects require ready access to both X-ray diffraction and NMR spectroscopy which support the collection of experimental data needed to solve large numbers of novel protein structures. The most productive X-ray crystal structure determination laboratories make extensive use of tunable synchrotron X-ray light to solve novel structures by anomalous diffraction methods. This requires that frozen cryo-protected crystals be shipped to large multi acre synchrotron facilities for data collection. In this paper we report on the development and use of the first laboratory-scale synchrotron light source capable of performing many of the state-of-the-art synchrotron applications in X-ray science. This Compact Light Source is a first-in-class device that uses inverse Compton scattering to generate X-rays of sufficient flux, tunable wavelength and beam size to allow high-resolution X-ray diffraction data collection from protein crystals. We report on benchmarking tests of X-ray diffraction data collection with hen egg white lysozyme, and the successful high-resolution X-ray structure determination of the Glycine cleavage system protein H from Mycobacterium tuberculosis using diffraction data collected with the Compact Light Source X-ray beam.

  • Organizational Affiliation

    Emerald BioStructures, 7869 NE Day Road West, Bainbridge Island, WA 98110, USA.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Glycine cleavage system H protein155Mycobacterium tuberculosis H37RvMutation(s): 0 
Gene Names: gcvHRv1826MT1874MTCY1A11.17c
Find proteins for P9WN55 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
Explore P9WN55 
Go to UniProtKB:  P9WN55
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP9WN55
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 1.75 Å
  • R-Value Free: 0.220 
  • R-Value Work: 0.181 
  • R-Value Observed: 0.183 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 86.86α = 90
b = 51.47β = 94.64
c = 32.53γ = 90
Software Package:
Software NamePurpose
XSCALEdata scaling
PDB_EXTRACTdata extraction
XDSdata reduction

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2009-05-26
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2015-04-22
    Changes: Database references
  • Version 1.3: 2023-09-06
    Changes: Data collection, Database references, Refinement description