1VLH

Crystal structure of Phosphopantetheine adenylyltransferase (TM0741) from Thermotoga maritima at 2.20 A resolution


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION,SITTING DROP,NANODROP82770.2M MgCl2, 35.0% MPD, 0.1M Imidazole pH 8.0, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
2.3346.81

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 67.963α = 90
b = 110.876β = 111.98
c = 74.087γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC2003-10-08MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 5.0.3ALS5.0.3

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
12.268.794.50.04614.53.14877647.96
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.22.26680.46821.92564

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1b6t2.268.746254249794.360.173320.170510.22687RANDOM41.497
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]
-1.92-1.41-1.442.3
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.939
r_dihedral_angle_4_deg20.308
r_dihedral_angle_3_deg18.255
r_dihedral_angle_1_deg7.716
r_scangle_it7.412
r_scbond_it5.857
r_mcangle_it2.681
r_mcbond_it1.835
r_angle_refined_deg1.716
r_angle_other_deg0.9
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.939
r_dihedral_angle_4_deg20.308
r_dihedral_angle_3_deg18.255
r_dihedral_angle_1_deg7.716
r_scangle_it7.412
r_scbond_it5.857
r_mcangle_it2.681
r_mcbond_it1.835
r_angle_refined_deg1.716
r_angle_other_deg0.9
r_mcbond_other0.493
r_symmetry_vdw_other0.274
r_symmetry_vdw_refined0.227
r_nbd_refined0.206
r_nbd_other0.184
r_symmetry_hbond_refined0.182
r_xyhbond_nbd_refined0.164
r_chiral_restr0.096
r_nbtor_other0.092
r_xyhbond_nbd_other0.085
r_bond_refined_d0.016
r_gen_planes_refined0.006
r_gen_planes_other0.003
r_bond_other_d0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms7520
Nucleic Acid Atoms
Solvent Atoms258
Heterogen Atoms140

Software

Software
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling
MOLREPphasing
REFMACrefinement
CCP4data scaling