Biological Assembly 1  

 3D View: Structure | Electron Density

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 16.54 kDa 
• Atom Count: 1204 
• Residue Count: 134 
• Unique protein chains: 1

3HGB

Crystal structure of glycine cleavage system protein H from Mycobacterium tuberculosis

• DOI: 10.2210/pdb3HGB/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Mycobacterium tuberculosis H37Rv
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-05-13 Released: 2009-05-26 
• Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 0.220 
• R-Value Work: 0.181 
• R-Value Observed: 0.183 

Literature

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

• PubMed: 20364333 
• DOI: 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.

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Related Citations: 

• Increasing the structural coverage of tuberculosis drug targets.
  Baugh, L., Phan, I., Begley, D.W., Clifton, M.C., Armour, B., Dranow, D.M., Taylor, B.M., Muruthi, M.M., Abendroth, J., Fairman, J.W., Fox, D., Dieterich, S.H., Staker, B.L., Gardberg, A.S., Choi, R., Hewitt, S.N., Napuli, A.J., Myers, J., Barrett, L.K., Zhang, Y., Ferrell, M., Mundt, E., Thompkins, K., Tran, N., Lyons-Abbott, S., Abramov, A., Sekar, A., Serbzhinskiy, D., Lorimer, D., Buchko, G.W., Stacy, R., Stewart, L.J., Edwards, T.E., Van Voorhis, W.C., Myler, P.J.
  (2015) Tuberculosis (Edinb) 95: 142

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Organizational Affiliation: 

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

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glycine cleavage system H protein	A	155	Mycobacterium tuberculosis H37Rv	Mutation(s): 0  Gene Names: gcvH, Rv1826, MT1874, MTCY1A11.17c
Find proteins for P9WN55 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore P9WN55  Go to UniProtKB:  P9WN55

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• 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 = 86.86	α = 90
b = 51.47	β = 94.64
c = 32.53	γ = 90

Software Package:

Software Name	Purpose
XSCALE	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
XDS	data reduction

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2009-05-13 
• Released Date: 2009-05-26 
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History 

• 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