6M9Z

X-ray Structure of Branchiostoma floridae fluorescent protein lanFP6G


X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 293.0
Details 0.1M Na acetate pH 7.0, 12% PEG 3350

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 81.92 α = 90
b = 131.38 β = 116.41
c = 55.08 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2018-01-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-BM 1.0 APS 22-BM

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
1.2 100 95.3 0.046 -- -- 3.8 -- 153983 -- -- 10.3
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
1.2 1.24 85.0 0.532 -- -- 3.4 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 1.2 28.0 -- -- -- 152375 1606 95.9 -- 0.128 0.128 0.146 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 1.2 1.24 -- 123 10514 0.233 0.22 -- 89.54
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -0.12
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.25
Anisotropic B[2][2] -0.05
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.05
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_4_deg 13.063
r_mcangle_other 2.195
r_angle_other_deg 1.026
r_dihedral_angle_1_deg 7.064
r_rigid_bond_restr 4.76
r_bond_other_d 0.002
r_dihedral_angle_2_deg 42.016
r_scangle_other 3.357
r_sphericity_free 20.594
r_gen_planes_other 0.004
r_bond_refined_d 0.012
r_mcangle_it 2.195
r_chiral_restr 0.104
r_angle_refined_deg 1.853
r_sphericity_bonded 9.41
r_dihedral_angle_3_deg 11.612
r_gen_planes_refined 0.011
r_mcbond_other 1.577
r_mcbond_it 1.578
r_scbond_it 3.2
r_scbond_other 3.199
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3516
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 503

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0103
SCALEPACK data scaling
MOLREP phasing
PDB_EXTRACT data extraction version: 3.24
HKL-2000 data reduction