1S8N

Crystal structure of Rv1626 from Mycobacterium tuberculosis


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1SD5 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1MICROBATCH4295PEG 1.5K, pure water, pH 4, Micro batch, temperature 295K
Crystal Properties
Matthews coefficientSolvent content
238.48

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 44.836α = 90
b = 44.836β = 90
c = 180.626γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCH2003-02-20MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONEMBL/DESY, HAMBURG BEAMLINE X110.813EMBL/DESY, HAMBURGX11

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
11.482450.03721.76.22993522.4

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1sd51.482303064929676157098.280.20420.20420.20290.22835RANDOM16.467
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]
0.310.31-0.63
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg14.204
r_scangle_it5.95
r_scbond_it3.905
r_mcangle_it2.692
r_mcbond_it1.708
r_angle_refined_deg1.093
r_angle_other_deg0.659
r_symmetry_vdw_other0.356
r_symmetry_vdw_refined0.3
r_nbd_other0.266
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg14.204
r_scangle_it5.95
r_scbond_it3.905
r_mcangle_it2.692
r_mcbond_it1.708
r_angle_refined_deg1.093
r_angle_other_deg0.659
r_symmetry_vdw_other0.356
r_symmetry_vdw_refined0.3
r_nbd_other0.266
r_nbd_refined0.246
r_symmetry_hbond_refined0.185
r_xyhbond_nbd_refined0.137
r_nbtor_other0.085
r_chiral_restr0.084
r_bond_refined_d0.009
r_gen_planes_refined0.005
r_bond_other_d
r_gen_planes_other
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1481
Nucleic Acid Atoms
Solvent Atoms201
Heterogen Atoms3

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
CCP4data scaling
MOLREPphasing