1ZUP
CRYSTAL STRUCTURE OF A PUTATIVE NUCLEASE WITH A RIBONUCLEASE H-LIKE MOTIF FOLD (TM1739) FROM THERMOTOGA MARITIMA AT 2.20 A RESOLUTION
X-RAY DIFFRACTION
Crystallization
Crystalization Experiments | ||||
---|---|---|---|---|
ID | Method | pH | Temperature | Details |
1 | VAPOR DIFFUSION, SITTING DROP, NANODROP | 277 | 0.10M Acetate_Na, 0.03M HCl, 8.00% MPD, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K | |
2 | VAPOR DIFFUSION, SITTING DROP, NANODROP | 277 | 0.10M Acetate_Na, 0.03M HCl, 7.00% MPD, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 82.433 | α = 90 |
b = 82.433 | β = 90 |
c = 234.492 | γ = 90 |
Symmetry | |
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Space Group | P 43 21 2 |
Diffraction
Diffraction Experiment | ||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ID # | Crystal ID | Scattering Type | Data Collection Temperature | Detector | Detector Type | Details | Collection Date | Monochromator | Protocol | |||||
1 | 1 | x-ray | 100 | CCD | ADSC QUANTUM 315 | Double crystal Si(111) | 2003-12-20 | M | SINGLE WAVELENGTH | |||||
2 | 1 | x-ray | 100 | CCD | ADSC QUANTUM 210 | Double crystal Si(111) | 2004-01-08 | M | SINGLE WAVELENGTH | |||||
1,2 | 1 |
Radiation Source | |||||
---|---|---|---|---|---|
ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | SYNCHROTRON | ALS BEAMLINE 8.2.2 | 1.0000 | ALS | 8.2.2 |
2 | SYNCHROTRON | ALS BEAMLINE 8.2.1 | 0.9794 | ALS | 8.2.1 |
Data Collection
Overall | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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 | ||||||||
1,2 | 2.1 | 41.22 | 100 | 0.121 | 5.5 | 9.2 | 48259 |
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) | Redundancy | Number Unique Reflections (All) | ||||||||||
1,2 | 2.1 | 2.15 | 100 | 0.01375 | 0.01375 | 1.6 | 6.8 |
Refinement
Statistics | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Diffraction ID | Structure Solution Method | Cross Validation method | Resolution (High) | Resolution (Low) | Number Reflections (Observed) | Number Reflections (R-Free) | Percent Reflections (Observed) | R-Factor (All) | R-Factor (Observed) | R-Work | R-Free | R-Free Selection Details | Mean Isotropic B | ||||||
X-RAY DIFFRACTION | SAD | THROUGHOUT | 2.2 | 20 | 39863 | 2114 | 99.93 | 0.23 | 0.22988 | 0.228 | 0.266 | RANDOM | 60.792 |
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] | |
0.42 | 0.42 | -0.84 |
RMS Deviations | |
---|---|
Key | Refinement Restraint Deviation |
r_dihedral_angle_2_deg | 38.672 |
r_dihedral_angle_3_deg | 16.522 |
r_dihedral_angle_4_deg | 15.978 |
r_scangle_it | 8.85 |
r_dihedral_angle_1_deg | 7.084 |
r_scbond_it | 6.255 |
r_mcangle_it | 3.511 |
r_mcbond_it | 2.422 |
r_angle_refined_deg | 1.651 |
r_angle_other_deg | 0.826 |
Non-Hydrogen Atoms Used in Refinement | |
---|---|
Non-Hydrogen Atoms | Number |
Protein Atoms | 4349 |
Nucleic Acid Atoms | |
Solvent Atoms | 70 |
Heterogen Atoms |
Software
Software | |
---|---|
Software Name | Purpose |
REFMAC | refinement |
SCALA | data scaling |
MOSFLM | data reduction |
CCP4 | data scaling |
SHARP | phasing |