4ALO
STRUCTURE AND PROPERTIES OF H1 CRUSTACYANIN FROM LOBSTER HOMARUS AMERICANUS
X-RAY DIFFRACTION
Starting Model(s)
Initial Refinement Model(s) | |||
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Type | Source | Accession Code | Details |
experimental model | PDB | 1H91 | PDB ENTRY 1H91 |
Crystallization
Crystalization Experiments | ||||
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ID | Method | pH | Temperature | Details |
1 | CRYSTALLIZATION CONDITIONS: H1 PROTEIN SOLUTION AT 10.7 MG/ML IN TRIS-HCL 0.1M, PH 7.0, AND EDTA 1MM WAS USED IN CRYSTALLIZATION EXPERIMENTS. THE BEST CRYSTALS WERE GROWN BY MIXING EQUAL VOLUMES OF PROTEIN SOLUTION WITH EDTA 1MM, 2.4 M AMMONIUM SULPHATE, 5% V/V 2-METHYL-2,4-PENTANEDIOL (MPD) AND TRIS-HCL PH 8.0 BUFFER. CRYSTALS GREW IN A WEEK TO A SIZE OF 100 BY 30 BY 30 MICROMETERS. |
Crystal Properties | |
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Matthews coefficient | Solvent content |
2.06 | 40.45 |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 40.368 | α = 90 |
b = 78.423 | β = 90 |
c = 105.625 | γ = 90 |
Symmetry | |
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Space Group | P 21 21 21 |
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 | MAR CCD 165 mm | 2008-12-19 | M | SINGLE WAVELENGTH |
Radiation Source | |||||
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ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | SYNCHROTRON | MPG/DESY, HAMBURG BEAMLINE BW6 | MPG/DESY, HAMBURG | BW6 |
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 | 2.38 | 20 | 98.9 | 0.08 | 14 | 3.5 | 13959 | 2.5 |
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 | 2.38 | 2.46 | 99 | 0.34 | 2.5 | 3.5 |
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 1H91 | 2.37 | 62.99 | 13260 | 699 | 98.8 | 0.22466 | 0.22246 | 0.26601 | RANDOM | 35.481 |
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] | |
0.65 | 0.52 | -1.17 |
RMS Deviations | |
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Key | Refinement Restraint Deviation |
r_dihedral_angle_2_deg | 38.898 |
r_dihedral_angle_3_deg | 17.503 |
r_dihedral_angle_4_deg | 14.589 |
r_dihedral_angle_1_deg | 5.916 |
r_scangle_it | 1.916 |
r_scbond_it | 1.127 |
r_angle_refined_deg | 1.073 |
r_mcangle_it | 0.969 |
r_mcbond_it | 0.51 |
r_chiral_restr | 0.074 |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 2918 |
Nucleic Acid Atoms | |
Solvent Atoms | 98 |
Heterogen Atoms | 68 |
Software
Software | |
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Software Name | Purpose |
REFMAC | refinement |
DENZO | data reduction |
SCALEPACK | data scaling |
MOLREP | phasing |