2GNO

Crystal structure of a dna polymerase iii, gamma subunit-related protein (tm0771) from thermotoga maritima msb8 at 2.00 A resolution


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP, NANODROP6.227735.0% 2-ethoxyethanol, 0.2M NaCl, 0.1M Na,K-Phosphate, pH 6.2, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
2.3146.22

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 135.56α = 90
b = 135.56β = 90
c = 35.56γ = 90
Symmetry
Space GroupI 4

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315Flat mirror (vertical focusing)2005-12-18MMAD
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRL BEAMLINE BL11-10.979224, 0.918370, 0.978940SSRLBL11-1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge 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
1227.994.70.04111.882210542.314
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
122.0783.80.4152

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (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 DIFFRACTIONMADTHROUGHOUT227.9422103113099.260.2230.220.278RANDOM34.573
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]
-0.96-0.961.91
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg25.182
r_dihedral_angle_3_deg8.319
r_dihedral_angle_4_deg8.252
r_scangle_it6.14
r_scbond_it4.208
r_mcangle_it2.42
r_dihedral_angle_1_deg2.099
r_angle_refined_deg1.684
r_mcbond_it1.427
r_angle_other_deg1.188
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg25.182
r_dihedral_angle_3_deg8.319
r_dihedral_angle_4_deg8.252
r_scangle_it6.14
r_scbond_it4.208
r_mcangle_it2.42
r_dihedral_angle_1_deg2.099
r_angle_refined_deg1.684
r_mcbond_it1.427
r_angle_other_deg1.188
r_mcbond_other0.385
r_symmetry_hbond_refined0.22
r_nbd_refined0.18
r_xyhbond_nbd_refined0.169
r_nbtor_refined0.165
r_symmetry_vdw_refined0.145
r_nbd_other0.123
r_symmetry_vdw_other0.109
r_chiral_restr0.107
r_nbtor_other0.081
r_bond_refined_d0.013
r_gen_planes_refined0.006
r_bond_other_d0.003
r_gen_planes_other0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2346
Nucleic Acid Atoms
Solvent Atoms107
Heterogen Atoms17

Software

Software
Software NamePurpose
REFMACrefinement
XSCALEdata scaling
PDB_EXTRACTdata extraction
XDSdata reduction
SHARPphasing