2B9C
Structure of tropomyosin's mid-region: bending and binding sites for actin
X-RAY DIFFRACTION
Crystallization
Crystalization Experiments | ||||
---|---|---|---|---|
ID | Method | pH | Temperature | Details |
1 | VAPOR DIFFUSION, HANGING DROP | 7 | 289 | Native: Three microliters of protein solution [6.35mg/ml MidTm; 20mM Tris-HCl pH7.0; 100mM NaCl; 2mM 2-mercaptoethanol and 2mM NaN3] were combined with two microliters of 14% PEG2k-MME, and the resultant drop was equilibrated against 1ml reservoir solution [7.5% PEG2k-MME; 120mM NaCl; 24mM Tris-HCl pH7.0] by vapor diffusion at 16 C. Se-Met: Two microliters of protein solution [18mg/ml MidTm; 20mM Tris-HCl pH6.9; 100mM NaCl; 10mM mercaptoethanol and 2mM NaN3] were combined with two microliters of precipitant solution [28-32% PEG2K-MME; 50mM NaCl; 20mM Tris-HCl pH6.9 and 5mM mercaptoethanol]. The resultant mixture was equilibrated against 1ml reservoir solution [24% PEG2K-MME; 50mM NaCl; 20mM Tris-HCL pH6.9 and 5mM mercaptoethanol] by vapor diffusion at 16C. , VAPOR DIFFUSION, HANGING DROP, temperature 289K |
Crystal Properties | |
---|---|
Matthews coefficient | Solvent content |
3.07 | 59.94 |
Crystal Data
Unit Cell | |
---|---|
Length ( Å ) | Angle ( ˚ ) |
a = 80.515 | α = 90 |
b = 80.515 | β = 90 |
c = 112.453 | γ = 120 |
Symmetry | |
---|---|
Space Group | P 65 |
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 4 | M | SINGLE WAVELENGTH | |||||||
2 | 1 | x-ray | 100 | CCD | M | MAD | ||||||||
3 | 1 |
Radiation Source | |||||
---|---|---|---|---|---|
ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | SYNCHROTRON | CHESS BEAMLINE F1 | 0.9474 | CHESS | F1 |
2 | SYNCHROTRON | NSLS BEAMLINE X29A | 0.9786, 0.9793, 0.9611 | NSLS | X29A |
Data Collection
Overall | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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 | 2.3 | 20 | 99.4 | 0.069 | 15.9 | 4.7 | 18253 | 2 |
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) | |||||||||||
2.3 | 2.38 | 100 | 0.337 | 4.6 | 4.5 |
Refinement
Statistics | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Diffraction ID | Structure Solution Method | Resolution (High) | Resolution (Low) | Number Reflections (Observed) | Number Reflections (R-Free) | Percent Reflections (Observed) | R-Work (Depositor) | R-Work (DCC) | R-Free (Depositor) | R-Free (DCC) | R-Free Selection Details | Mean Isotropic B | |||||||
X-RAY DIFFRACTION | MAD | 2.3 | 20 | 17760 | 706 | 96.8 | 0.256 | 0.27 | 0.296 | 0.3 | random | 63.133 |
Temperature Factor Modeling | ||||||
---|---|---|---|---|---|---|
Anisotropic B[1][1] | Anisotropic B[1][2] | Anisotropic B[2][2] | Anisotropic B[3][3] | |||
3.759 | -7.579 | 3.759 | -7.518 |
RMS Deviations | |
---|---|
Key | Refinement Restraint Deviation |
c_angle_deg | 3.86603 |
c_bond_d | 0.050567 |
Non-Hydrogen Atoms Used in Refinement | |
---|---|
Non-Hydrogen Atoms | Number |
Protein Atoms | 2301 |
Nucleic Acid Atoms | |
Solvent Atoms | 349 |
Heterogen Atoms |
Software
Software | |
---|---|
Software Name | Purpose |
DENZO | data reduction |
SCALEPACK | data scaling |
SOLVE | phasing |
RESOLVE | phasing |
CNS | refinement |
PDB_EXTRACT | data extraction |