1JP9

Sperm Whale met-Myoglobin (low temperature; high pressure)


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1VXHPDB ENTRY 1VXH

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1batch6298ammonium sulfate, pH 6, batch, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
1.935.16

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 64.079α = 90
b = 30.777β = 105.42
c = 34.404γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray95CCDADSC QUANTUM 42000-02-02MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONCHESS BEAMLINE F10.9503CHESSF1

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
11.72698.50.0754.84144281442814.7
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)
1.671.8197.70.0966.83.63060

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (F)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONTHROUGHOUTPDB ENTRY 1VXH1.722.56214237137298.10.210.247RANDOM15.1
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]
-1.690.97-0.522.21
RMS Deviations
KeyRefinement Restraint Deviation
c_dihedral_angle_d16.8
c_scangle_it3.16
c_scbond_it2.13
c_mcangle_it1.57
c_mcbond_it1.14
c_improper_angle_d1.02
c_angle_deg1
c_bond_d0.005
c_bond_d_na
c_bond_d_prot
RMS Deviations
KeyRefinement Restraint Deviation
c_dihedral_angle_d16.8
c_scangle_it3.16
c_scbond_it2.13
c_mcangle_it1.57
c_mcbond_it1.14
c_improper_angle_d1.02
c_angle_deg1
c_bond_d0.005
c_bond_d_na
c_bond_d_prot
c_angle_d
c_angle_d_na
c_angle_d_prot
c_angle_deg_na
c_angle_deg_prot
c_dihedral_angle_d_na
c_dihedral_angle_d_prot
c_improper_angle_d_na
c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1203
Nucleic Acid Atoms
Solvent Atoms158
Heterogen Atoms68

Software

Software
Software NamePurpose
CNSrefinement
DPSdata reduction
CCP4data scaling
CNSphasing