1XF6

High resolution crystal structure of phycoerythrin 545 from the marine cryptophyte rhodomonas CS24


X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystal Properties
Matthews coefficientSolvent content
2.2344.77

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 62.98α = 90
b = 82.555β = 90
c = 89.53γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATEMARRESEARCH1998-07-13MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRL BEAMLINE BL9-10.98SSRLBL9-1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (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
11.160.8698.80.0330.03330.14.89055731868845.6
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
1.11.12950.1370.1378.42.7

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 REPLACEMENTTHROUGHOUT1QGW1.160.86181049181049563798.780.096650.096650.096060.1157RANDOM9.253
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]
-0.140.080.07
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.488
r_dihedral_angle_4_deg14.989
r_sphericity_free11.497
r_dihedral_angle_3_deg11.186
r_dihedral_angle_1_deg5.688
r_sphericity_bonded3.949
r_scangle_it3.932
r_scbond_it3.321
r_mcangle_it2.396
r_mcbond_it1.935
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.488
r_dihedral_angle_4_deg14.989
r_sphericity_free11.497
r_dihedral_angle_3_deg11.186
r_dihedral_angle_1_deg5.688
r_sphericity_bonded3.949
r_scangle_it3.932
r_scbond_it3.321
r_mcangle_it2.396
r_mcbond_it1.935
r_angle_refined_deg1.907
r_rigid_bond_restr1.535
r_angle_other_deg0.991
r_mcbond_other0.733
r_symmetry_vdw_other0.246
r_nbd_refined0.242
r_xyhbond_nbd_refined0.212
r_nbd_other0.193
r_symmetry_hbond_refined0.186
r_nbtor_refined0.178
r_symmetry_vdw_refined0.173
r_chiral_restr0.122
r_nbtor_other0.09
r_bond_refined_d0.019
r_gen_planes_refined0.012
r_bond_other_d0.003
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3786
Nucleic Acid Atoms
Solvent Atoms1052
Heterogen Atoms359

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
CCP4data scaling
AMoREphasing