4FAS
Complex crystal structure of hydroxylamine oxidoreductase and NE1300 from Nitrosomonas europaea
X-RAY DIFFRACTION
Starting Model(s)
Initial Refinement Model(s) | |||
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Type | Source | Accession Code | Details |
experimental model | PDB | 1FGJ | Monomer of PDB ID: 1FGJ |
Crystallization
Crystalization Experiments | ||||
---|---|---|---|---|
ID | Method | pH | Temperature | Details |
1 | VAPOR DIFFUSION | 7.5 | 292 | 0.1 M potassium nitrate, 0.1 M MES pH 7.5 and 46%(v/v) PEG 400, VAPOR DIFFUSION, temperature 292K |
2 | VAPOR DIFFUSION | 7.5 | 292 | 0.1 M potassium nitrate, 0.1 M MES pH 7.5 and 46%(v/v) PEG 400, VAPOR DIFFUSION, temperature 292K |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 140.731 | α = 90 |
b = 142.618 | β = 90 |
c = 107.376 | γ = 90 |
Symmetry | |
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Space Group | P 21 21 2 |
Diffraction
Diffraction Experiment | ||||||||||||||
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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 | Mirror | 2009-02-11 | M | SINGLE WAVELENGTH |
Radiation Source | |||||
---|---|---|---|---|---|
ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | SYNCHROTRON | APS BEAMLINE 19-ID | 0.97948 | APS | 19-ID |
Data Collection
Overall | |||||||||||||||||||
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ID # | Resolution (High) | Resolution (Low) | Percent Possible (Observed) | R Merge 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 | 2.1 | 50 | 86.7 | 0.127 | 9.554 | 4.6 | 125826 | 109103 | -3 | 32.67 |
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 | 2.1 | 2.14 | 69.3 | 0.574 | 2.036 | 3.9 | 4298 |
Refinement
Statistics | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Diffraction ID | Structure Solution Method | Cross Validation method | Starting model | Resolution (High) | Resolution (Low) | Number Reflections (All) | 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 | MOLECULAR REPLACEMENT | THROUGHOUT | Monomer of PDB ID: 1FGJ | 2.1 | 42.89 | 119593 | 95555 | 5071 | 79.9 | 0.16701 | 0.16701 | 0.16493 | 0.20583 | RANDOM | 37.348 |
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] | |
-1.75 | -0.15 | 1.9 |
RMS Deviations | |
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Key | Refinement Restraint Deviation |
r_dihedral_angle_2_deg | 35.194 |
r_dihedral_angle_4_deg | 19.875 |
r_dihedral_angle_3_deg | 17.487 |
r_dihedral_angle_1_deg | 6.466 |
r_scangle_it | 4.39 |
r_scbond_it | 3.202 |
r_angle_refined_deg | 2.102 |
r_mcangle_it | 1.781 |
r_mcbond_it | 1.037 |
r_chiral_restr | 0.128 |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 13125 |
Nucleic Acid Atoms | |
Solvent Atoms | 785 |
Heterogen Atoms | 1279 |
Software
Software | |
---|---|
Software Name | Purpose |
SBC-Collect | data collection |
PHASER | phasing |
REFMAC | refinement |
HKL-2000 | data reduction |
HKL-2000 | data scaling |