Experiment: 3MEL

X-RAY DIFFRACTION

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	Other		GtR2

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	5.5	293	Protein solution: 100mM NaCl, 5mM DTT, 0.02% NaN3, 10mM Tris-HCl (pH 7.5) . Reservoir solution: MgSO4 - 0.15M, Bis-Tris 0.1M, PEG8K 16%, ATP, MgCl2, thiamine, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Properties
Matthews coefficient	Solvent content
2.92	57.93

Symmetry
Space Group	P 1 21 1

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	MIRRORS	2010-03-24	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSLS BEAMLINE X4C	0.97853	NSLS	X4C

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	2.788	50	99.8	0.097	7.9	3.1		56964		-3

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	2.8	2.9	99.8		0.484	1.6

Statistics
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 (All)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MAD	FREE R-VALUE	GtR2	2.788	48.53	29025	1476	99.17	0.172	0.1679	0.2028	0.2493	0.2641	43.906

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]
-1.942		-1.008	-1.031		3.134

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	17.498
r_dihedral_angle_6_deg	14.721
r_dihedral_angle_2_deg	11.604
r_dihedral_angle_1_deg	8.948
r_lrange_it	7.762
r_scangle_it	6.055
r_mcangle_it	3.977
r_scbond_it	3.924
r_angle_refined_deg	2.791
r_mcbond_it	2.453

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_3_deg	17.498
r_dihedral_angle_6_deg	14.721
r_dihedral_angle_2_deg	11.604
r_dihedral_angle_1_deg	8.948
r_lrange_it	7.762
r_scangle_it	6.055
r_mcangle_it	3.977
r_scbond_it	3.924
r_angle_refined_deg	2.791
r_mcbond_it	2.453
r_nbtor_refined	0.331
r_symmetry_nbd_refined	0.27
r_nbd_refined	0.257
r_chiral_restr	0.179
r_xyhbond_nbd_refined	0.178
r_symmetry_xyhbond_nbd_refined	0.093
r_bond_refined_d	0.012
r_gen_planes_refined	0.01

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	6776
Nucleic Acid Atoms
Solvent Atoms	67
Heterogen Atoms	100

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.

3MEL | pdb_00003mel