2Y0G

X-ray structure of Enhanced Green Fluorescent Protein (EGFP)


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1Q4APDB ENTRY 1Q4A

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
18.250 MM HEPES PH 8.2, 24% PEG 4000, 50 MM MGCL2, 10 MM BETA-MERCAPTOEPTHANOL
Crystal Properties
Matthews coefficientSolvent content
2.140

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 51.047α = 90
b = 62.183β = 90
c = 70.018γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCDMULTILAYER AND GERMANIUM MIRROR2005-11-05MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-3ESRFID14-3

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
11.531.199.60.0813.54.736173214.76
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)
11.51.5898.50.512.44.4

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 REPLACEMENTTHROUGHOUTPDB ENTRY 1Q4A1.546.4734373179999.410.138310.135620.18849RANDOM11.932
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]
-0.670.660.01
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.895
r_dihedral_angle_3_deg13.288
r_dihedral_angle_4_deg11.819
r_scangle_it7.148
r_dihedral_angle_1_deg6.975
r_scbond_it4.984
r_mcangle_it3.182
r_mcbond_it2.204
r_rigid_bond_restr2.069
r_angle_refined_deg2.068
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.895
r_dihedral_angle_3_deg13.288
r_dihedral_angle_4_deg11.819
r_scangle_it7.148
r_dihedral_angle_1_deg6.975
r_scbond_it4.984
r_mcangle_it3.182
r_mcbond_it2.204
r_rigid_bond_restr2.069
r_angle_refined_deg2.068
r_angle_other_deg1.008
r_mcbond_other0.796
r_chiral_restr0.123
r_bond_refined_d0.023
r_gen_planes_refined0.01
r_bond_other_d0.003
r_gen_planes_other0.001
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1803
Nucleic Acid Atoms
Solvent Atoms264
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
MOLREPphasing