2A0N

Crystal structure of Imidazole glycerol phosphate synthase subunit hisF (EC 4.1.3.-) (tm1036) from Thermotoga maritima at 1.64 A resolution


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1VH7PDB entry 1vh7

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP, NANODROP6.92730.2None Nal, 20.0% PEG-3350, No Buffer, pH 6.9, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 273K
Crystal Properties
Matthews coefficientSolvent content
3.2962.33

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 96.61α = 90
b = 96.61β = 90
c = 155.828γ = 120
Symmetry
Space GroupP 61 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315Flat Mirror; Side-deflecting monochromator (Si 111)2004-03-31MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRL BEAMLINE BL9-1SSRLBL9-1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.6448.311000.0960.0966.212.953271
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.641.681000.0140.013690.510.6

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB entry 1vh71.6448.3150488270499.990.1680.1670.192RANDOM20.454
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
0.030.010.03-0.04
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.281
r_dihedral_angle_4_deg20.161
r_dihedral_angle_3_deg10.15
r_scangle_it7.148
r_dihedral_angle_1_deg5.213
r_scbond_it5.007
r_mcangle_it3.04
r_angle_refined_deg1.908
r_mcbond_it1.901
r_angle_other_deg1.699
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.281
r_dihedral_angle_4_deg20.161
r_dihedral_angle_3_deg10.15
r_scangle_it7.148
r_dihedral_angle_1_deg5.213
r_scbond_it5.007
r_mcangle_it3.04
r_angle_refined_deg1.908
r_mcbond_it1.901
r_angle_other_deg1.699
r_mcbond_other0.555
r_nbd_refined0.241
r_nbd_other0.194
r_symmetry_vdw_other0.181
r_xyhbond_nbd_refined0.167
r_symmetry_hbond_refined0.167
r_chiral_restr0.099
r_nbtor_other0.096
r_symmetry_vdw_refined0.086
r_bond_refined_d0.017
r_gen_planes_other0.017
r_gen_planes_refined0.012
r_bond_other_d0.003
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1915
Nucleic Acid Atoms
Solvent Atoms279
Heterogen Atoms42

Software

Software
Software NamePurpose
REFMACrefinement
SCALAdata scaling
PDB_EXTRACTdata extraction
MOSFLMdata reduction
CCP4data scaling
MOLREPphasing