4AIQ
The FrpB iron transporter from Neisseria meningitidis (F5-1 variant)
X-RAY DIFFRACTION
Starting Model(s)
Initial Refinement Model(s) | |||
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Type | Source | Accession Code | Details |
experimental model | PDB | 4AIP | PDB ENTRY 4AIP |
Crystallization
Crystalization Experiments | ||||
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ID | Method | pH | Temperature | Details |
1 | 6.5 | 30 MM DI-ETHYLENE GLYCOL, 30 MM TRI-ETHYLENE GLYCOL, 30 MM TETRA-ETHYLENE GLYCOL, 30 MM PENTA-ETHYLENE GLYCOL, 45 MM IMIDAZOLE, 20% (W/V) PEGMME550, 10% (W/V) PEG 20000 AND 56 MM MES (PH 6.5) |
Crystal Properties | |
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Matthews coefficient | Solvent content |
3.4 | 64 |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 175.98 | α = 90 |
b = 78.69 | β = 97.22 |
c = 73.43 | γ = 90 |
Symmetry | |
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Space Group | C 1 2 1 |
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 | PIXEL | DECTIS PILATUS | 2011-10-10 | M | SINGLE WAVELENGTH |
Radiation Source | |||||
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ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | SYNCHROTRON | DIAMOND BEAMLINE I24 | Diamond | I24 |
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 | 2.6 | 36 | 97.4 | 0.06 | 12.7 | 2.6 | 29989 | 2 |
Highest Resolution Shell | |||||||||||||||||||
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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 | 2.6 | 2.67 | 98.9 | 0.52 | 2.2 | 2.6 |
Refinement
Statistics | |||||||||||||||||||
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Diffraction ID | Structure Solution Method | Cross Validation method | Starting model | Resolution (High) | Resolution (Low) | Number Reflections (Observed) | Number Reflections (R-Free) | Percent Reflections (Observed) | R-Factor (Observed) | R-Work | R-Free | R-Free Selection Details | Mean Isotropic B | ||||||
X-RAY DIFFRACTION | MOLECULAR REPLACEMENT | THROUGHOUT | PDB ENTRY 4AIP | 2.6 | 36.42 | 28422 | 1506 | 97.25 | 0.22918 | 0.22654 | 0.27749 | RANDOM | 48.868 |
Temperature Factor Modeling | ||||||
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Anisotropic B[1][1] | Anisotropic B[1][2] | Anisotropic B[1][3] | Anisotropic B[2][2] | Anisotropic B[2][3] | Anisotropic B[3][3] | |
-0.92 | -2.92 | 0.34 | -0.16 |
RMS Deviations | |
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Key | Refinement Restraint Deviation |
r_dihedral_angle_2_deg | 39.69 |
r_dihedral_angle_4_deg | 21.367 |
r_dihedral_angle_3_deg | 19.909 |
r_dihedral_angle_1_deg | 8.376 |
r_scangle_it | 5.386 |
r_scbond_it | 3.257 |
r_angle_refined_deg | 2.16 |
r_mcangle_it | 2.019 |
r_mcbond_it | 1.039 |
r_chiral_restr | 0.15 |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 5168 |
Nucleic Acid Atoms | |
Solvent Atoms | 44 |
Heterogen Atoms | 6 |
Software
Software | |
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Software Name | Purpose |
REFMAC | refinement |
XDS | data reduction |
XSCALE | data scaling |
MOLREP | phasing |