4HVF

Crystal structure of green fluorescent protein lanGFP(Branchiostoma Lanceolatum)


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2G3OPDB ENTRY 2G3O

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.529320 mM Tris pH 8.0, 200 mM NaCl, 5 mM EDTA mixed with an equal amount of reservoir solutions: 0.2M MgCl2x6H2O, 0.1M BIS-Tris pH 5.5, 25% PEG3350, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K
Crystal Properties
Matthews coefficientSolvent content
2.2344.92

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 72.187α = 90
b = 105.802β = 90
c = 121.13γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 300 mm CCDmirrorsMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 22-ID1.0APS22-ID

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
11.75099.50.08110.27.3101261
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)
11.71.7795.30.4156.49578

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 2G3O1.726.56100954101399.370.1770.17670.2134RANDOM18.0593
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]
-0.010.01
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.865
r_dihedral_angle_4_deg15.64
r_dihedral_angle_3_deg14.649
r_dihedral_angle_1_deg6.808
r_scangle_it4.69
r_scbond_it3.256
r_mcangle_it2.318
r_angle_refined_deg2.127
r_angle_other_deg1.503
r_mcbond_it1.47
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.865
r_dihedral_angle_4_deg15.64
r_dihedral_angle_3_deg14.649
r_dihedral_angle_1_deg6.808
r_scangle_it4.69
r_scbond_it3.256
r_mcangle_it2.318
r_angle_refined_deg2.127
r_angle_other_deg1.503
r_mcbond_it1.47
r_chiral_restr0.181
r_bond_refined_d0.03
r_gen_planes_refined0.017
r_bond_other_d0.005
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms7096
Nucleic Acid Atoms
Solvent Atoms612
Heterogen Atoms12

Software

Software
Software NamePurpose
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction