3LRD

Self-assembly of spider silk proteins is controlled by a pH-sensitive relay


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3LR2NT wild-type

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSIONAmmonium sulphate, PEG 400, VAPOR DIFFUSION
Crystal Properties
Matthews coefficientSolvent content
2.3347.14

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 68.383α = 90
b = 68.383β = 90
c = 97.781γ = 120
Symmetry
Space GroupP 32 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-rayCCDADSC QUANTUM 315MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID23-1ESRFID23-1

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
12.0659.230.0877.25.3140861.8
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)
2.062.2060.42145.52416

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 REPLACEMENTTHROUGHOUTNT wild-type2.1559.21408673999.520.172990.170130.22841RANDOM14.606
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]
0.780.390.78-1.17
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.986
r_dihedral_angle_3_deg14.628
r_dihedral_angle_4_deg10.151
r_dihedral_angle_1_deg4.894
r_scangle_it3.016
r_scbond_it2.236
r_angle_refined_deg1.423
r_mcangle_it1.133
r_mcbond_it0.889
r_nbtor_refined0.295
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.986
r_dihedral_angle_3_deg14.628
r_dihedral_angle_4_deg10.151
r_dihedral_angle_1_deg4.894
r_scangle_it3.016
r_scbond_it2.236
r_angle_refined_deg1.423
r_mcangle_it1.133
r_mcbond_it0.889
r_nbtor_refined0.295
r_nbd_refined0.217
r_symmetry_vdw_refined0.194
r_symmetry_hbond_refined0.162
r_xyhbond_nbd_refined0.13
r_chiral_restr0.09
r_bond_refined_d0.016
r_gen_planes_refined0.006
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1856
Nucleic Acid Atoms
Solvent Atoms55
Heterogen Atoms18

Software

Software
Software NamePurpose
REFMACrefinement