4RSD
STRUCTURE OF THE D121A VARIANT OF RIBONUCLEASE A
X-RAY DIFFRACTION
Starting Model(s)
Initial Refinement Model(s) | |||
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Type | Source | Accession Code | Details |
experimental model | PDB | 1RPH | PDB ENTRY 1RPH |
Crystallization
Crystalization Experiments | ||||
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ID | Method | pH | Temperature | Details |
1 | 5.3 | DROPS CONSISTING OF 1.5UL OF A 60MG/ML PROTEIN SOLUTION, 1.5UL OF H2O AND 3UL OF RESERVOIR SOLUTION WERE SUSPENDED OVER A 0.5ML RESERVOIR CONTAINING A SOLUTION OF 2.5M NAOAC, PH 5.3 IN SATURATING NACL. TEMP. 20C. |
Crystal Properties | |
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Matthews coefficient | Solvent content |
2.87 | 60 |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 64.7 | α = 90 |
b = 64.7 | β = 90 |
c = 65.03 | γ = 120 |
Symmetry | |
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Space Group | P 32 2 1 |
Diffraction
Diffraction Experiment | ||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ID # | Crystal ID | Scattering Type | Data Collection Temperature | Detector | Detector Type | Details | Collection Date | Monochromator | Protocol | |||||
1 | 1 | x-ray | 277 | AREA DETECTOR | SIEMENS | LONG MIRRORS | 1996-02-07 | M |
Radiation Source | |||||
---|---|---|---|---|---|
ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | ROTATING ANODE | RIGAKU RUH2R |
Data Collection
Overall | |||||||||||||||||||
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ID # | Resolution (High) | Resolution (Low) | Percent Possible (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 | 1.6 | 30 | 91 | 0.029 | 20 | 2.1 | 27087 | 0.33 |
Highest Resolution Shell | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ID # | Resolution (High) | Resolution (Low) | Percent Possible (All) | Percent Possible (Observed) | R Merge I (Observed) | Mean I Over Sigma (Observed) | Redundancy | Number Unique Reflections (All) | |||||||||||
1.6 | 1.7 | 85 | 0.14 |
Refinement
Statistics | |||||||||||||||||||
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Diffraction ID | Structure Solution Method | Starting model | Resolution (High) | Resolution (Low) | Number Reflections (All) | Number Reflections (Observed) | Number Reflections (R-Free) | Percent Reflections (Observed) | R-Factor (All) | R-Work | R-Free | Mean Isotropic B | |||||||
X-RAY DIFFRACTION | MOLECULAR REPLACEMENT | PDB ENTRY 1RPH | 1.6 | 30 | 19996 | 19996 | 91 | 0.18 |
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] | |
RMS Deviations | |
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Key | Refinement Restraint Deviation |
t_dihedral_angle_d | 16.8 |
t_angle_deg | 2.78 |
t_it | 1 |
t_nbd | 0.046 |
t_bond_d | 0.013 |
t_gen_planes | 0.011 |
t_trig_c_planes | 0.007 |
t_incorr_chiral_ct | |
t_pseud_angle |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 953 |
Nucleic Acid Atoms | |
Solvent Atoms | 102 |
Heterogen Atoms | 6 |
Software
Software | |
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Software Name | Purpose |
XDS | data scaling |
XCALIBRE | data reduction |
AMoRE | phasing |
TNT | refinement |
XDS | data reduction |
XCALIBRE | data scaling |