9IGG | pdb_00009igg

X-RAY DIFFRACTION

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2YXJ

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	5.5	284	0.2 M Ca Acetate, 0.1 M Na Acetate buffer pH 5.5, 10 % PegMME550, 10% Peg3350

Crystal Properties
Matthews coefficient	Solvent content
1.9	36

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	PIXEL	DECTRIS PILATUS 6M		2016-03-04	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I04-1	0.92819	Diamond	I04-1

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	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	1.48	30.6	95.7	0.043	0.053	0.031	0.998	13	2.5		43007

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.48	1.52			0.576	0.766	0.5	0.655	1.2	1.9

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	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	MOLECULAR REPLACEMENT	FREE R-VALUE	1.5	25.001	41415	2021	95.735	0.199	0.1975	0.2061	0.2329	0.2395	30.937

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]
-0.82		0.271	1.868		-1.082

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	15.025
r_dihedral_angle_2_deg	14.379
r_dihedral_angle_3_deg	12.854
r_dihedral_angle_other_2_deg	10.311
r_lrange_it	9.131
r_lrange_other	9.129
r_scangle_it	6.114
r_scangle_other	6.112
r_dihedral_angle_1_deg	5.753
r_mcangle_it	4.038

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	15.025
r_dihedral_angle_2_deg	14.379
r_dihedral_angle_3_deg	12.854
r_dihedral_angle_other_2_deg	10.311
r_lrange_it	9.131
r_lrange_other	9.129
r_scangle_it	6.114
r_scangle_other	6.112
r_dihedral_angle_1_deg	5.753
r_mcangle_it	4.038
r_mcangle_other	4.037
r_scbond_it	4.004
r_scbond_other	4.004
r_mcbond_it	2.882
r_mcbond_other	2.881
r_angle_refined_deg	1.633
r_angle_other_deg	0.583
r_symmetry_nbd_refined	0.373
r_symmetry_xyhbond_nbd_refined	0.368
r_xyhbond_nbd_refined	0.243
r_nbd_refined	0.235
r_nbtor_refined	0.192
r_symmetry_nbd_other	0.187
r_nbd_other	0.185
r_chiral_restr	0.079
r_symmetry_nbtor_other	0.071
r_bond_refined_d	0.008
r_gen_planes_refined	0.008
r_symmetry_xyhbond_nbd_other	0.006
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2311
Nucleic Acid Atoms
Solvent Atoms	150
Heterogen Atoms	58

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.